SRS10548140 SAMN22246590 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2017-07-11 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1093 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 11.9 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 15.886434 host_height 69.8512702 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2017-07-06T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 39773 FinalReads_ASVpipeline 14194 sampling_induced_expectorated expectorated barcode BSP0115 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 25401.14 templateDNA_16SqPCR_Cq 23.37605297 templateDNA_16SqPCR 0.018017129 well C08 plate_number P3 barcode_806R 806rcbc259 index_sequence TACGTCCCGTTC DOB 2005-08-12T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2017-07 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2015-09-25T00:00:00 datehiv 2007-06-15T00:00:00 ageyart 10.12 duryart 1.79 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -2.3273685 weight 29.6 f24mrcscore 2 FEV1_baseline 1.19 FEVpcpred 69.8512702 FVC 1.344375014 FVCZ -2.499591813 FVCpcpred 69.25714217 FEV1FVC 0.885169722 FEV1FVCZ 0.120744932 cd4 728 vload 39 zwauk -1.5389141 zhauk -1.5946016 zbmiuk -0.85228664 vllog 1.5910646 endtreatdate ['2018-06-12T00:00:00', '2018-06-12T00:00:00'] sp05time 09:35:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2018-12-07T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2018-12-07T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548141 SAMN22246641 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-06-12 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1093 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 12.8 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 15.859906 host_height 83.55684021 samp_size ['2', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2018-06-12T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 37936 FinalReads_ASVpipeline 12879 sampling_induced_expectorated expectorated barcode BSP0418 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 96129.46 templateDNA_16SqPCR_Cq 21.38706001 templateDNA_16SqPCR 0.068185009 well C09 plate_number P3 barcode_806R 806rcbc267 index_sequence TGTTTGAGCTGT DOB 2005-08-12T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2017-07 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2015-09-25T00:00:00 datehiv 2007-06-15T00:00:00 ageyart 10.12 duryart 1.79 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.248739722 weight 31.8 f24mrcscore 1 FEV1_baseline 1.600000024 FEVpcpred 83.55684021 FVC 1.88499999 FVCZ -1.084742051 FVCpcpred 86.59302248 FEV1FVC 0.848806383 FEV1FVCZ -0.524398986 cd4 763 vload 455 zwauk -1.6915382 zhauk -1.5481017 zbmiuk -1.1805961 vllog 2.6580114 endtreatdate ['NA', '2018-06-12T00:00:00'] sp05time 09:10:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2018-12-07T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2018-12-07T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548142 SAMN22246651 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-07-10 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1103 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 20.3 ethnicity black host_occupation missing host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 21.313305 host_height 83.47664423 samp_size ['1.5', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2018-07-10T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 44099 FinalReads_ASVpipeline 14703 sampling_induced_expectorated expectorated barcode BSP0452 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 190511.88 templateDNA_16SqPCR_Cq 20.49510213 templateDNA_16SqPCR 0.135130837 well C03 plate_number P1 barcode_806R 806rcbc26 index_sequence ATGTGCACGACT DOB 1998-03-09T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2017-08 attendschool no rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2007-03-10T00:00:00 datehiv 2007-03-07T00:00:00 ageyart 9 duryart 10.41 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.292763777 weight 63.2 f24mrcscore 1 FEV1_baseline 3.089999914 FEVpcpred 83.47664423 FVC 3.785000086 FVCZ -0.961066233 FVCpcpred 88.00999856 FEV1FVC 0.816380408 FEV1FVCZ -0.772896536 cd4 286 vload 45 zwauk -0.79311824 zhauk -0.74892998 zbmiuk -0.33432648 vllog 1.6532125 endtreatdate ['NA', '2018-07-10T00:00:00'] sp05time 09:00:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2018-12-21T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2018-12-21T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548143 SAMN22246736 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-08-26 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1203 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 14.2 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 14.639076 host_height 68.64440557 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 72 visit_date 2019-08-26T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 34869 FinalReads_ASVpipeline 9971 sampling_induced_expectorated expectorated barcode BSP0745 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 1128368.91 templateDNA_16SqPCR_Cq 17.70643038 templateDNA_16SqPCR 0.800356558 well F11 plate_number P3 barcode_806R 806rcbc286 index_sequence TGTGCTGTGTAG DOB 2005-05-25T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2018-04 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2011-12-03T00:00:00 datehiv 2011-11-15T00:00:00 ageyart 6.52 duryart 6.35 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -2.368066193 weight 28 f24mrcscore 2 FEV1_baseline 1.320000052 FEVpcpred 68.64440557 FVC 1.507500052 FVCZ -2.217402541 FVCpcpred 71.80922365 FEV1FVC 0.875621895 FEV1FVCZ -0.660750286 cd4 NA vload NA zwauk -4.1690059 zhauk -3.4313612 zbmiuk -2.7068391 vllog NA endtreatdate ['NA', '2019-03-11T00:00:00'] sp05time 10:30:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-08-26T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-08-26T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat yes acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548144 SAMN22246636 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-04-10 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1204 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 18 ethnicity black host_occupation missing host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 20.191069 host_height 80.71197015 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2018-04-06T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 39648 FinalReads_ASVpipeline 9488 sampling_induced_expectorated expectorated barcode BSP0374 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 16861.24 templateDNA_16SqPCR_Cq 24.09654715 templateDNA_16SqPCR 0.011959744 well D12 plate_number P2 barcode_806R 806rcbc195 index_sequence TTCGCCCTTCAG DOB 2000-03-16T00:00:00 trial_arm Placebo adherence Not Adherent enrolmonth 2018-04 attendschool no rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2011-11-15T00:00:00 datehiv 2011-11-01T00:00:00 ageyart 11.67 duryart 6.4 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.4725111 weight 49.2 f24mrcscore 2 FEV1_baseline 2.12 FEVpcpred 80.71197015 FVC 2.266875029 FVCZ -1.737316038 FVCpcpred 77.33972173 FEV1FVC 0.935208099 FEV1FVCZ 0.635358495 cd4 20 vload 80300 zwauk -1.1612716 zhauk -1.237177 zbmiuk -0.4019599 vllog 4.9047155 endtreatdate ['2019-03-12T00:00:00', '2019-03-12T00:00:00'] sp05time 09:24:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-08-27T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 6 lastvisitdate 2019-08-27T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m yes reason_hospi anaemia antibiotic12m no any3_reasons 1 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548145 SAMN22246704 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-03-12 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1204 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 18.9 ethnicity black host_occupation missing host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 18.36183 host_height 70.5325312 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2019-03-12T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 44606 FinalReads_ASVpipeline 16169 sampling_induced_expectorated expectorated barcode BSP0659 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 146622.61 templateDNA_16SqPCR_Cq 20.88 templateDNA_16SqPCR 0.104 well E01 plate_number P2 barcode_806R 806rcbc108 index_sequence TATCAGGTGTGC DOB 2000-03-16T00:00:00 trial_arm Placebo adherence Not Adherent enrolmonth 2018-04 attendschool no rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2011-11-15T00:00:00 datehiv 2011-11-01T00:00:00 ageyart 11.67 duryart 6.4 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -2.22687812 weight 44.8 f24mrcscore 2 FEV1_baseline 1.860000014 FEVpcpred 70.5325312 FVC 2.196249962 FVCZ -1.966148944 FVCpcpred 74.3456346 FEV1FVC 0.846898143 FEV1FVCZ -0.810966121 cd4 59 vload 43500 zwauk -1.9617329 zhauk -1.2302181 zbmiuk -1.3690059 vllog 4.6384892 endtreatdate ['NA', '2019-03-12T00:00:00'] sp05time 09:55:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-08-27T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 6 lastvisitdate 2019-08-27T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m yes reason_hospi anaemia antibiotic12m no any3_reasons 1 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548146 SAMN22246737 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-08-27 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1204 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 19.4 ethnicity black host_occupation missing host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 20.659595 host_height 69.84732434 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 72 visit_date 2019-08-27T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 38515 FinalReads_ASVpipeline 9568 sampling_induced_expectorated expectorated barcode BSP0747 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 840683.28 templateDNA_16SqPCR_Cq 18.3 templateDNA_16SqPCR 0.5963 well E02 plate_number P2 barcode_806R 806rcbc116 index_sequence GAATGATGAGTG DOB 2000-03-16T00:00:00 trial_arm Placebo adherence Not Adherent enrolmonth 2018-04 attendschool no rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2011-11-15T00:00:00 datehiv 2011-11-01T00:00:00 ageyart 11.67 duryart 6.4 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -2.275954729 weight 50.6 f24mrcscore 2 FEV1_baseline 1.850000024 FEVpcpred 69.84732434 FVC 2.199374914 FVCZ -1.992718222 FVCpcpred 73.96878692 FEV1FVC 0.841148097 FEV1FVCZ -0.866082701 cd4 NA vload 183000 zwauk -1.0096359 zhauk -1.1806581 zbmiuk -0.36335844 vllog 5.2624512 endtreatdate ['NA', '2019-03-12T00:00:00'] sp05time 10:45:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-08-27T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 6 lastvisitdate 2019-08-27T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m yes reason_hospi anaemia antibiotic12m no any3_reasons 1 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548147 SAMN22246638 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-04-25 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1206 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 15.9 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTIMOXAZOLE, METRONIDAZOLE host_hiv_stat yes host_body_mass_index 15.188478 host_height 72.3894672 samp_size ['1', ''] study_complt_stat study ended isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2018-04-20T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 47374 FinalReads_ASVpipeline 8345 sampling_induced_expectorated expectorated barcode BSP0389 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 931473.26 templateDNA_16SqPCR_Cq 18.0795091 templateDNA_16SqPCR 0.660697692 well A04 plate_number P4 barcode_806R 806rcbc321 index_sequence TGTACACGGCGA DOB 2002-05-05T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2018-04 attendschool yes rs15antibty COTIMOXAZOLE, METRONIDAZOLE rs14antib yes dateart 2017-05-15T00:00:00 datehiv 2017-03-31T00:00:00 ageyart 15.03 duryart 0.94 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -2.0408533 weight 37.2 f24mrcscore 2 FEV1_baseline 2.01 FEVpcpred 72.3894672 FVC 2.206249952 FVCZ -2.39598611 FVCpcpred 70.38291557 FEV1FVC 0.911048174 FEV1FVCZ 0.415573275 cd4 326 vload 426 zwauk -3.2294416 zhauk -2.2030594 zbmiuk -2.8961587 vllog 2.6294096 endtreatdate ['2019-03-27T00:00:00', '2019-03-27T00:00:00'] sp05time 09:50:00 all_3 no visit012 yes visit1218 no visit018 no only2visits yes one_visit no endfollowup 2019-03-27T00:00:00 dow NA dod NA lastvisit 12 mths visittotno 5 lastvisitdate 2019-03-27T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548148 SAMN22246708 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-03-27 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1206 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 16.8 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 17.388685 host_height 78.41469567 samp_size ['1', ''] study_complt_stat study ended isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2019-03-27T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 44152 FinalReads_ASVpipeline 13310 sampling_induced_expectorated expectorated barcode BSP0666 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 178525.04 templateDNA_16SqPCR_Cq 20.51253984 templateDNA_16SqPCR 0.12662852 well A05 plate_number P4 barcode_806R 806rcbc329 index_sequence AATACCGCTTTG DOB 2002-05-05T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2018-04 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2017-05-15T00:00:00 datehiv 2017-03-31T00:00:00 ageyart 15.03 duryart 0.94 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.622112365 weight 46.2 f24mrcscore 1 FEV1_baseline 2.450000048 FEVpcpred 78.41469567 FVC 2.701874971 FVCZ -1.933196074 FVCpcpred 76.03404275 FEV1FVC 0.906777728 FEV1FVCZ 0.411236593 cd4 372 vload 62800 zwauk -2.3745637 zhauk -1.7577381 zbmiuk -1.5816292 vllog 4.7979598 endtreatdate ['NA', '2019-03-27T00:00:00'] sp05time 09:20:00 all_3 no visit012 yes visit1218 no visit018 no only2visits yes one_visit no endfollowup 2019-03-27T00:00:00 dow NA dod NA lastvisit 12 mths visittotno 5 lastvisitdate 2019-03-27T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548149 SAMN22246642 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-06-21 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1208 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 15 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 17.308369 host_height 83.28900907 samp_size ['1', ''] study_complt_stat study ended isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2018-06-19T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 42067 FinalReads_ASVpipeline 13480 sampling_induced_expectorated expectorated barcode BSP0425 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 23833.08 templateDNA_16SqPCR_Cq 23.47127975 templateDNA_16SqPCR 0.016904899 well B10 plate_number P3 barcode_806R 806rcbc274 index_sequence CACACAGCGTTA DOB 2003-06-05T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2018-06 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2016-10-17T00:00:00 datehiv 2010-09-15T00:00:00 ageyart 13.37 duryart 1.68 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.2368666 weight 40.2 f24mrcscore 1 FEV1_baseline 2.09 FEVpcpred 83.28900907 FVC 2.631875038 FVCZ -0.561753772 FVCpcpred 93.01930112 FEV1FVC 0.794110618 FEV1FVCZ -1.38704446 cd4 661 vload 39 zwauk -1.8992068 zhauk -2.0706444 zbmiuk -1.0411141 vllog 1.5910646 endtreatdate ['2019-05-28T00:00:00', '2019-05-28T00:00:00'] sp05time 08:45:00 all_3 no visit012 yes visit1218 no visit018 no only2visits yes one_visit no endfollowup 2019-05-28T00:00:00 dow NA dod NA lastvisit 12 mths visittotno 5 lastvisitdate 2019-05-28T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548150 SAMN22246712 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-05-28 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1208 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 15.9 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 18.025957 host_height 84.44768363 samp_size ['1.1', ''] study_complt_stat study ended isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2019-05-28T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 44016 FinalReads_ASVpipeline 14117 sampling_induced_expectorated expectorated barcode BSP0677 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 44964.06 templateDNA_16SqPCR_Cq 22.52260677 templateDNA_16SqPCR 0.031893185 well B11 plate_number P3 barcode_806R 806rcbc282 index_sequence GTAAGCACCTAC DOB 2003-06-05T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2018-06 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2016-10-17T00:00:00 datehiv 2010-09-15T00:00:00 ageyart 13.37 duryart 1.68 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.159705363 weight 45 f24mrcscore 1 FEV1_baseline 2.390000105 FEVpcpred 84.44768363 FVC 2.950000048 FVCZ -0.627903889 FVCpcpred 92.18748169 FEV1FVC 0.810169514 FEV1FVCZ -1.127713791 cd4 541 vload 39 zwauk -1.9025656 zhauk -2.0095334 zbmiuk -0.92686087 vllog 1.5910646 endtreatdate ['NA', '2019-05-28T00:00:00'] sp05time 11:00:00 all_3 no visit012 yes visit1218 no visit018 no only2visits yes one_visit no endfollowup 2019-05-28T00:00:00 dow NA dod NA lastvisit 12 mths visittotno 5 lastvisitdate 2019-05-28T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548151 SAMN22246644 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-06-26 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1209 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 17.3 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 24.434263 host_height 81.99216434 samp_size ['2', ''] study_complt_stat study ended isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2018-06-21T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 52755 FinalReads_ASVpipeline 21814 sampling_induced_expectorated expectorated barcode BSP0430 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 91278.38 templateDNA_16SqPCR_Cq 21.46444642 templateDNA_16SqPCR 0.06474412 well B08 plate_number P3 barcode_806R 806rcbc258 index_sequence AAGTGGACTCTC DOB 2001-02-19T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2018-06 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2016-06-15T00:00:00 datehiv 2011-06-15T00:00:00 ageyart 15.32 duryart 2.03 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.3768682 weight 52.8 f24mrcscore 1 FEV1_baseline 1.91 FEVpcpred 81.99216434 FVC 2.24000001 FVCZ -0.983530373 FVCpcpred 87.08429538 FEV1FVC 0.852678553 FEV1FVCZ -0.888106067 cd4 588 vload 135 zwauk -0.56732535 zhauk -2.7298038 zbmiuk 1.1012689 vllog 2.1303337 endtreatdate ['2019-05-28T00:00:00', '2019-05-28T00:00:00'] sp05time 09:06:00 all_3 no visit012 yes visit1218 no visit018 no only2visits yes one_visit no endfollowup 2019-05-28T00:00:00 dow NA dod NA lastvisit 12 mths visittotno 5 lastvisitdate 2019-05-28T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548152 SAMN22246713 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-05-28 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1209 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 18.2 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 25.383492 host_height 73.65905492 samp_size ['1', ''] study_complt_stat study ended isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2019-05-28T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 36396 FinalReads_ASVpipeline 13059 sampling_induced_expectorated expectorated barcode BSP0678 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 1406140.08 templateDNA_16SqPCR_Cq 17.37753447 templateDNA_16SqPCR 0.997380757 well B09 plate_number P3 barcode_806R 806rcbc266 index_sequence GATAGAAAGCCA DOB 2001-02-19T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2018-06 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2016-06-15T00:00:00 datehiv 2011-06-15T00:00:00 ageyart 15.32 duryart 2.03 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.997840316 weight 55.6 f24mrcscore 1 FEV1_baseline 1.730000019 FEVpcpred 73.65905492 FVC 2.029999971 FVCZ -1.68594564 FVCpcpred 77.97644377 FEV1FVC 0.85221677 FEV1FVCZ -0.846124326 cd4 382 vload 6200 zwauk -0.26056141 zhauk -2.582072 zbmiuk 1.2631015 vllog 3.7923918 endtreatdate ['NA', '2019-05-28T00:00:00'] sp05time 09:40:00 all_3 no visit012 yes visit1218 no visit018 no only2visits yes one_visit no endfollowup 2019-05-28T00:00:00 dow NA dod NA lastvisit 12 mths visittotno 5 lastvisitdate 2019-05-28T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548153 SAMN22246681 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-12-21 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1103 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 20.7 ethnicity black host_occupation missing host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 21.129301 host_height 82.32002707 samp_size ['2', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 72 visit_date 2018-12-21T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 37704 FinalReads_ASVpipeline 6636 sampling_induced_expectorated expectorated barcode BSP0579 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 1731375.54 templateDNA_16SqPCR_Cq 17.29344052 templateDNA_16SqPCR 1.228071561 well C04 plate_number P1 barcode_806R 806rcbc34 index_sequence CTGCTAACGCAA DOB 1998-03-09T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2017-08 attendschool no rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2007-03-10T00:00:00 datehiv 2007-03-07T00:00:00 ageyart 9 duryart 10.41 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.383121697 weight 62.8 f24mrcscore 1 FEV1_baseline 3.0599999430000002 FEVpcpred 82.32002707 FVC 3.66624999 FVCZ -1.221975097 FVCpcpred 84.76106113 FEV1FVC 0.834640287 FEV1FVCZ -0.481214397 cd4 NA vload NA zwauk -0.89425248 zhauk -0.73585582 zbmiuk -0.49144992 vllog NA endtreatdate ['NA', '2018-07-10T00:00:00'] sp05time 08:19:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2018-12-21T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2018-12-21T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548154 SAMN22246645 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-06-26 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1210 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 15.2 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 20.888889 host_height 70.11663386 samp_size ['1.5', ''] study_complt_stat study ended isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2018-06-21T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 42600 FinalReads_ASVpipeline 12174 sampling_induced_expectorated expectorated barcode BSP0431 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 158551.68 templateDNA_16SqPCR_Cq 20.76150233 templateDNA_16SqPCR 0.112461341 well H04 plate_number P1 barcode_806R 806rcbc39 index_sequence AAGAGATGTCGA DOB 2003-03-16T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2018-06 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2013-12-03T00:00:00 datehiv 2013-11-21T00:00:00 ageyart 10.72 duryart 4.56 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -2.2604437 weight 47 f24mrcscore 1 FEV1_baseline 1.65 FEVpcpred 70.11663386 FVC 1.883124948 FVCZ -2.140632574 FVCpcpred 72.59024587 FEV1FVC 0.876203132 FEV1FVCZ -0.5499064 cd4 403 vload 392 zwauk -0.977521 zhauk -2.0394273 zbmiuk 0.29439688 vllog 2.593286 endtreatdate ['2019-05-28T00:00:00', '2019-05-28T00:00:00'] sp05time 09:20:00 all_3 no visit012 yes visit1218 no visit018 no only2visits yes one_visit no endfollowup 2019-05-28T00:00:00 dow NA dod NA lastvisit 12 mths visittotno 5 lastvisitdate 2019-05-28T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat yes acut_exac12m yes hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 1 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548155 SAMN22246711 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-05-28 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1210 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 16.2 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 20.594965 host_height 58.9797632 samp_size ['1', ''] study_complt_stat study ended isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2019-05-28T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 43411 FinalReads_ASVpipeline 11498 sampling_induced_expectorated expectorated barcode BSP0676 sequencing_controls no sequencing_control_details NA WRrepeats AT WRrepeats_WP AT WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 551250.82 templateDNA_16SqPCR_Cq 18.95375507 templateDNA_16SqPCR 0.391004404 well H05 plate_number P1 barcode_806R 806rcbc47 index_sequence ACGCCACGAATG DOB 2003-03-16T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2018-06 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2013-12-03T00:00:00 datehiv 2013-11-21T00:00:00 ageyart 10.72 duryart 4.56 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -3.068532663 weight 48.4 f24mrcscore 1 FEV1_baseline 1.470000029 FEVpcpred 58.9797632 FVC 1.508124948 FVCZ -3.597388224 FVCpcpred 54.6901412 FEV1FVC 0.974720318 FEV1FVCZ 1.337297013 cd4 135 vload 119000 zwauk -1.0309905 zhauk -1.6478138 zbmiuk 0.026541114 vllog 5.0755467 endtreatdate ['NA', '2019-05-28T00:00:00'] sp05time 10:00:00 all_3 no visit012 yes visit1218 no visit018 no only2visits yes one_visit no endfollowup 2019-05-28T00:00:00 dow NA dod NA lastvisit 12 mths visittotno 5 lastvisitdate 2019-05-28T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat yes acut_exac12m yes hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 1 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548156 SAMN22246647 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-07-03 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1214 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 8.4 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage NA host_hiv_stat yes host_body_mass_index 15.997108 host_height 63.34201888 samp_size ['1', ''] study_complt_stat withdrawal isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2018-06-29T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 46100 FinalReads_ASVpipeline 10380 sampling_induced_expectorated expectorated barcode BSP0439 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 92669.23 templateDNA_16SqPCR_Cq 21.53952566 templateDNA_16SqPCR 0.06573065 well G10 plate_number P2 barcode_806R 806rcbc182 index_sequence TAATCCACAGCG DOB 2010-01-10T00:00:00 trial_arm Azithromycin adherence Not Adherent enrolmonth 2018-07 attendschool yes rs15antibty NA rs14antib no dateart 2012-11-30T00:00:00 datehiv 2012-11-15T00:00:00 ageyart 2.89 duryart 5.59 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -2.7446094 weight 21.6 f24mrcscore 2 FEV1_baseline 0.7 FEVpcpred 63.34201888 FVC 0.734375 FVCZ -3.123773403 FVCpcpred 59.93948176 FEV1FVC 0.953191473 FEV1FVCZ 0.89201349 cd4 419 vload 477000 zwauk -1.6541936 zhauk -2.5439806 zbmiuk 0.076922283 vllog 5.6785183 endtreatdate ['2018-07-03T00:00:00', '2018-07-03T00:00:00'] sp05time 09:05:00 all_3 no visit012 no visit1218 no visit018 no only2visits no one_visit yes endfollowup 2018-07-03T00:00:00 dow 43284 dod NA lastvisit NA visittotno 0 lastvisitdate NA treatstopreason Refused cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548157 SAMN22246648 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-07-04 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1217 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 19.4 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 21.882158 host_height 78.87205007 samp_size ['1.5', ''] study_complt_stat study ended isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2018-07-02T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 39406 FinalReads_ASVpipeline 11334 sampling_induced_expectorated expectorated barcode BSP0442 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 92118.47 templateDNA_16SqPCR_Cq 21.57 templateDNA_16SqPCR 0.06534 well F02 plate_number P4 barcode_806R 806rcbc310 index_sequence TCTTAACGACTG DOB 1999-01-09T00:00:00 trial_arm Placebo adherence Not Adherent enrolmonth 2018-07 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2011-12-15T00:00:00 datehiv 2011-12-11T00:00:00 ageyart 12.93 duryart 6.55 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.6080886 weight 53.8 f24mrcscore 1 FEV1_baseline 2.09 FEVpcpred 78.87205007 FVC 2.390000105 FVCZ -1.495519528 FVCpcpred 80.33044863 FEV1FVC 0.874476913 FEV1FVCZ -0.347741066 cd4 321 vload 2500 zwauk -0.54798967 zhauk -1.1311206 zbmiuk 0.099839225 vllog 3.3979399 endtreatdate ['2019-06-05T00:00:00', '2019-06-05T00:00:00'] sp05time 09:40:00 all_3 no visit012 yes visit1218 no visit018 no only2visits yes one_visit no endfollowup 2019-06-05T00:00:00 dow NA dod NA lastvisit 12 mths visittotno 5 lastvisitdate 2019-06-05T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548158 SAMN22246716 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-06-05 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1217 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 20.4 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 23.007286 host_height 88.06154215 samp_size ['1', ''] study_complt_stat study ended isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2019-06-05T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 44095 FinalReads_ASVpipeline 17217 sampling_induced_expectorated expectorated barcode BSP0684 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 46425.65 templateDNA_16SqPCR_Cq 22.49614499 templateDNA_16SqPCR 0.032929902 well F03 plate_number P4 barcode_806R 806rcbc318 index_sequence GCCGAGATTGGT DOB 1999-01-09T00:00:00 trial_arm Placebo adherence Not Adherent enrolmonth 2018-07 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2011-12-15T00:00:00 datehiv 2011-12-11T00:00:00 ageyart 12.93 duryart 6.55 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -0.914761338 weight 57 f24mrcscore 1 FEV1_baseline 2.359999895 FEVpcpred 88.06154215 FVC 2.699374914 FVCZ -0.803401255 FVCpcpred 89.31013419 FEV1FVC 0.874276442 FEV1FVCZ -0.28188785 cd4 347 vload 751 zwauk -0.14133315 zhauk -1.0352731 zbmiuk 0.40769005 vllog 2.8756399 endtreatdate ['NA', '2019-06-05T00:00:00'] sp05time 08:35:00 all_3 no visit012 yes visit1218 no visit018 no only2visits yes one_visit no endfollowup 2019-06-05T00:00:00 dow NA dod NA lastvisit 12 mths visittotno 5 lastvisitdate 2019-06-05T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548159 SAMN22246652 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-07-10 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1220 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 15.1 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 16.205801 host_height 60.05758342 samp_size ['1.5', ''] study_complt_stat study ended isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2018-07-03T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 41094 FinalReads_ASVpipeline 14063 sampling_induced_expectorated expectorated barcode BSP0453 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 342730.35 templateDNA_16SqPCR_Cq 19.63 templateDNA_16SqPCR 0.2431 well C02 plate_number P4 barcode_806R 806rcbc307 index_sequence AGCGATGCCTTA DOB 2003-06-03T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2018-07 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2010-08-21T00:00:00 datehiv 2010-08-07T00:00:00 ageyart 7.22 duryart 7.89 artdrug1stline no artdrug2ndline yes artreg ATV/LPV/PI fev1z -2.9073915 weight 43.8 f24mrcscore 1 FEV1_baseline 1.79 FEVpcpred 60.05758342 FVC 2.211250067 FVCZ -2.853063995 FVCpcpred 64.84681445 FEV1FVC 0.809496849 FEV1FVCZ -1.031931903 cd4 698 vload 314 zwauk -1.4228319 zhauk -0.63121539 zbmiuk -1.7737894 vllog 2.4969296 endtreatdate ['2019-06-18T00:00:00', '2019-06-18T00:00:00'] sp05time 09:05:00 all_3 no visit012 yes visit1218 no visit018 no only2visits yes one_visit no endfollowup 2019-06-18T00:00:00 dow NA dod NA lastvisit 12 mths visittotno 5 lastvisitdate 2019-06-18T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548161 SAMN22246653 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-07-17 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1224 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 19.4 ethnicity black host_occupation missing host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 17.65625 host_height 79.97508266 samp_size ['2', ''] study_complt_stat withdrawal isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2018-07-11T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 20029 FinalReads_ASVpipeline 7046 sampling_induced_expectorated expectorated barcode BSP0458 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats N EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 53700.87 templateDNA_16SqPCR_Cq 22.33211912 templateDNA_16SqPCR 0.03809024 well B05 plate_number P1 barcode_806R 806rcbc41 index_sequence TACAGATGGCTC DOB 1999-01-25T00:00:00 trial_arm Placebo adherence Not Adherent enrolmonth 2018-07 attendschool no rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2009-08-15T00:00:00 datehiv 2009-06-15T00:00:00 ageyart 10.55 duryart 8.92 artdrug1stline no artdrug2ndline yes artreg ATV/LPV/PI fev1z -1.5256652 weight 45.2 f24mrcscore 1 FEV1_baseline 2.22 FEVpcpred 79.97508266 FVC 2.641249895 FVCZ -1.174521233 FVCpcpred 84.48844865 FEV1FVC 0.840511166 FEV1FVCZ -0.845181567 cd4 269 vload 86 zwauk -1.9072797 zhauk -0.60115045 zbmiuk -1.8139173 vllog 1.9344984 endtreatdate ['2018-07-17T00:00:00', '2018-07-17T00:00:00'] sp05time 09:21:00 all_3 no visit012 no visit1218 no visit018 no only2visits no one_visit yes endfollowup 2018-07-31T00:00:00 dow 43312 dod NA lastvisit NA visittotno 0 lastvisitdate NA treatstopreason Refused cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548162 SAMN22246717 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-06-18 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1220 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 16 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 16.093725 host_height 71.46829132 samp_size ['1', ''] study_complt_stat study ended isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2019-06-18T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 46993 FinalReads_ASVpipeline 8795 sampling_induced_expectorated expectorated barcode BSP0691 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 74288.35 templateDNA_16SqPCR_Cq 21.80380489 templateDNA_16SqPCR 0.052693025 well C03 plate_number P4 barcode_806R 806rcbc315 index_sequence GGATGTAAGTAG DOB 2003-06-03T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2018-07 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2010-08-21T00:00:00 datehiv 2010-08-07T00:00:00 ageyart 7.22 duryart 7.89 artdrug1stline no artdrug2ndline yes artreg ATV/LPV/PI fev1z -2.109354673 weight 48 f24mrcscore 1 FEV1_baseline 2.470000029 FEVpcpred 71.46829132 FVC 3.0337500569999998 FVCZ -1.912150135 FVCpcpred 76.31633968 FEV1FVC 0.814173871 FEV1FVCZ -0.905748097 cd4 663 vload 77900 zwauk -1.5142914 zhauk -0.10871515 zbmiuk -2.1935277 vllog 4.8915377 endtreatdate ['NA', '2019-06-18T00:00:00'] sp05time 08:45:00 all_3 no visit012 yes visit1218 no visit018 no only2visits yes one_visit no endfollowup 2019-06-18T00:00:00 dow NA dod NA lastvisit 12 mths visittotno 5 lastvisitdate 2019-06-18T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548163 SAMN22246656 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-07-24 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1226 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 17.7 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 18.046888 host_height 84.11001186 samp_size ['2', ''] study_complt_stat study ended isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2018-07-19T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 36126 FinalReads_ASVpipeline 15273 sampling_induced_expectorated expectorated barcode BSP0464 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 597691.12 templateDNA_16SqPCR_Cq 18.83641531 templateDNA_16SqPCR 0.423944693 well E11 plate_number P1 barcode_806R 806rcbc92 index_sequence AGATGTTCTGCT DOB 2000-10-26T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2018-07 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2009-06-15T00:00:00 datehiv 2008-12-01T00:00:00 ageyart 8.64 duryart 9.11 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.2136689 weight 42.8 f24mrcscore 1 FEV1_baseline 2.38 FEVpcpred 84.11001186 FVC 2.532500029 FVCZ -1.663096348 FVCpcpred 79.34626653 FEV1FVC 0.939782858 FEV1FVCZ 0.839652703 cd4 736 vload 0 zwauk -3.559628 zhauk -3.2543137 zbmiuk -1.4189579 vllog 0 endtreatdate ['2019-06-25T00:00:00', '2019-06-25T00:00:00'] sp05time 08:41:00 all_3 no visit012 yes visit1218 no visit018 no only2visits yes one_visit no endfollowup 2019-06-25T00:00:00 dow NA dod NA lastvisit 12 mths visittotno 5 lastvisitdate 2019-06-25T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548164 SAMN22246721 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-06-25 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1226 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 18.6 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 19.086391 host_height 84.73231475 samp_size ['1', ''] study_complt_stat study ended isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2019-06-25T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 49975 FinalReads_ASVpipeline 20490 sampling_induced_expectorated expectorated barcode BSP0706 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 247949.85 templateDNA_16SqPCR_Cq 20.11282189 templateDNA_16SqPCR 0.175871813 well E12 plate_number P1 barcode_806R 806rcbc100 index_sequence ACCACATACATC DOB 2000-10-26T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2018-07 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2009-06-15T00:00:00 datehiv 2008-12-01T00:00:00 ageyart 8.64 duryart 9.11 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.180804739 weight 50.4 f24mrcscore 1 FEV1_baseline 2.720000029 FEVpcpred 84.73231475 FVC 2.973750114 FVCZ -1.522736935 FVCpcpred 81.06698036 FEV1FVC 0.914670004 FEV1FVCZ 0.565064525 cd4 728 vload 0 zwauk -2.4549494 zhauk -2.1168129 zbmiuk -1.0624831 vllog 0 endtreatdate ['NA', '2019-06-25T00:00:00'] sp05time 09:12:00 all_3 no visit012 yes visit1218 no visit018 no only2visits yes one_visit no endfollowup 2019-06-25T00:00:00 dow NA dod NA lastvisit 12 mths visittotno 5 lastvisitdate 2019-06-25T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548165 SAMN22246596 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2017-08-16 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1105 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 16.3 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 18.069384 host_height 83.66275081 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2017-08-08T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 53221 FinalReads_ASVpipeline 19451 sampling_induced_expectorated expectorated barcode BSP0143 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 7468.02 templateDNA_16SqPCR_Cq 25.31860403 templateDNA_16SqPCR 0.005297093 well D09 plate_number P2 barcode_806R 806rcbc171 index_sequence ATGTGGGACCCA DOB 2001-04-01T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2017-08 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2014-01-15T00:00:00 datehiv 2013-12-15T00:00:00 ageyart 12.79 duryart 3.58 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.2231736 weight 41.2 f24mrcscore 2 FEV1_baseline 2.17 FEVpcpred 83.66275081 FVC 2.34190011 FVCZ -1.563814582 FVCpcpred 80.59780325 FEV1FVC 0.92659805 FEV1FVCZ 0.569185891 cd4 648 vload 39 zwauk -2.8611226 zhauk -3.1654787 zbmiuk -1.0217516 vllog 1.5910646 endtreatdate ['2018-07-18T00:00:00', '2018-07-18T00:00:00'] sp05time 11:00:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2018-12-13T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2018-12-13T00:00:00 treatstopreason Completed cough_enrl yes cotrimoxazole yes adm no nadm NA tbtreat yes acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548166 SAMN22246657 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-07-25 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1227 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 18.8 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 21.899437 host_height 84.71384363 samp_size ['2', ''] study_complt_stat study ended isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2018-07-23T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 41501 FinalReads_ASVpipeline 16894 sampling_induced_expectorated expectorated barcode BSP0465 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 56413.23 templateDNA_16SqPCR_Cq 22.20917852 templateDNA_16SqPCR 0.040014129 well C05 plate_number P4 barcode_806R 806rcbc331 index_sequence TTGCTGGTCCTC DOB 1999-09-01T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2018-07 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2007-07-22T00:00:00 datehiv 2007-01-15T00:00:00 ageyart 7.89 duryart 11.01 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.1701894 weight 51.6 f24mrcscore 1 FEV1_baseline 2.162499905 FEVpcpred 84.71384363 FVC 2.6849999430000002 FVCZ -0.440890406 FVCpcpred 94.13489176 FEV1FVC 0.805400354 FEV1FVCZ -1.41666737 cd4 252 vload 39 zwauk -0.84198433 zhauk -1.677328 zbmiuk 0.16155589 vllog 1.5910646 endtreatdate ['2019-06-26T00:00:00', '2019-06-26T00:00:00'] sp05time 10:05:00 all_3 no visit012 yes visit1218 no visit018 no only2visits yes one_visit no endfollowup 2019-06-27T00:00:00 dow NA dod NA lastvisit 12 mths visittotno 5 lastvisitdate 2019-06-27T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548167 SAMN22246722 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-06-27 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1227 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 19.8 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 20.360071 host_height 81.48026691 samp_size ['1', ''] study_complt_stat study ended isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2019-06-27T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 44404 FinalReads_ASVpipeline 11404 sampling_induced_expectorated expectorated barcode BSP0708 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 403765.27 templateDNA_16SqPCR_Cq 19.31062598 templateDNA_16SqPCR 0.286392311 well C07 plate_number P4 barcode_806R 806rcbc347 index_sequence GTCCATAGCTAG DOB 1999-09-01T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2018-07 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2007-07-22T00:00:00 datehiv 2007-01-15T00:00:00 ageyart 7.89 duryart 11.01 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.412209209 weight 48.6 f24mrcscore 1 FEV1_baseline 2.099999905 FEVpcpred 81.48026691 FVC 2.566250086 FVCZ -0.849213271 FVCpcpred 88.72551778 FEV1FVC 0.818314597 FEV1FVCZ -1.185227056 cd4 165 vload 24200 zwauk -1.3322295 zhauk -1.5134332 zbmiuk -0.52437419 vllog 4.3838153 endtreatdate ['NA', '2019-06-26T00:00:00'] sp05time 09:15:00 all_3 no visit012 yes visit1218 no visit018 no only2visits yes one_visit no endfollowup 2019-06-27T00:00:00 dow NA dod NA lastvisit 12 mths visittotno 5 lastvisitdate 2019-06-27T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548168 SAMN22246658 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-08-01 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1229 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 14.2 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 18.020409 host_height 77.73964168 samp_size ['1', ''] study_complt_stat withdrawal isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2018-07-20T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 18657 FinalReads_ASVpipeline 7456 sampling_induced_expectorated expectorated barcode BSP0469 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 213174.16 templateDNA_16SqPCR_Cq 20.33204935 templateDNA_16SqPCR 0.151205279 well E07 plate_number P1 barcode_806R 806rcbc60 index_sequence GTCAATTGACCG DOB 2004-05-10T00:00:00 trial_arm Azithromycin adherence Not Adherent enrolmonth 2018-08 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2010-08-31T00:00:00 datehiv 2010-05-15T00:00:00 ageyart 6.31 duryart 7.92 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.6457114 weight 40.6 f24mrcscore 1 FEV1_baseline 1.81 FEVpcpred 77.73964168 FVC 2.060625076 FVCZ -1.768137856 FVCpcpred 78.15630439 FEV1FVC 0.878374219 FEV1FVCZ -0.074388416 cd4 20 vload 1620000 zwauk -1.2391415 zhauk -1.6715178 zbmiuk -0.3848764 vllog 6.2095151 endtreatdate ['NA', 'NA'] sp05time 09:20:00 all_3 no visit012 no visit1218 no visit018 no only2visits no one_visit yes endfollowup 2019-01-16T00:00:00 dow 43481 dod NA lastvisit 3 mths visittotno 2 lastvisitdate 2018-10-24T00:00:00 treatstopreason Refused cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat yes acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548169 SAMN22246660 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-08-02 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1231 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 15.7 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 20.526468 host_height 86.36272721 samp_size ['1', ''] study_complt_stat study ended isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2018-07-26T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 41858 FinalReads_ASVpipeline 10595 sampling_induced_expectorated expectorated barcode BSP0472 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 410501.26 templateDNA_16SqPCR_Cq 19.28625895 templateDNA_16SqPCR 0.29117018 well G10 plate_number P4 barcode_806R 806rcbc375 index_sequence GTCTCATGTAGG DOB 2002-11-18T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2018-08 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2010-11-21T00:00:00 datehiv 2010-11-04T00:00:00 ageyart 8.01 duryart 7.7 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.0467937 weight 46 f24mrcscore 1 FEV1_baseline 2.03 FEVpcpred 86.36272721 FVC 2.1537499430000002 FVCZ -1.297779459 FVCpcpred 83.15827976 FEV1FVC 0.94254209 FEV1FVCZ 0.624550552 cd4 323 vload 4080 zwauk -1.2767248 zhauk -2.1785135 zbmiuk 0.085294038 vllog 3.6106601 endtreatdate ['2019-07-04T00:00:00', '2019-07-04T00:00:00'] sp05time 09:30:00 all_3 no visit012 yes visit1218 no visit018 no only2visits yes one_visit no endfollowup 2019-07-04T00:00:00 dow NA dod NA lastvisit 12 mths visittotno 5 lastvisitdate 2019-07-04T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548170 SAMN22246729 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-07-31 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1236 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 19.8 ethnicity black host_occupation missing host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 18.422079 host_height 77.57837975 samp_size ['1', ''] study_complt_stat study ended isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2019-07-31T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 51367 FinalReads_ASVpipeline 9731 sampling_induced_expectorated expectorated barcode BSP0728 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 1209.63 templateDNA_16SqPCR_Cq 28.0501372 templateDNA_16SqPCR 0.000857995 well E04 plate_number P2 barcode_806R 806rcbc132 index_sequence ATCGCTCGAGGA DOB 1999-10-08T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2018-08 attendschool no rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2010-11-01T00:00:00 datehiv 2010-09-03T00:00:00 ageyart 11.07 duryart 7.82 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.741859546 weight 39 f24mrcscore 1 FEV1_baseline 1.970000029 FEVpcpred 77.57837975 FVC 2.228125095 FVCZ -1.757221583 FVCpcpred 78.15204853 FEV1FVC 0.884151448 FEV1FVCZ -0.127864203 cd4 508 vload 39 zwauk -5.4169207 zhauk -4.5643697 zbmiuk -1.6952186 vllog 1.5910646 endtreatdate ['NA', '2019-07-31T00:00:00'] sp05time 09:30:00 all_3 no visit012 yes visit1218 no visit018 no only2visits yes one_visit no endfollowup 2019-07-31T00:00:00 dow NA dod NA lastvisit 12 mths visittotno 5 lastvisitdate 2019-07-31T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548171 SAMN22246724 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-07-04 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1231 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 16.6 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 21.127377 host_height 79.32872083 samp_size ['1', ''] study_complt_stat study ended isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2019-07-04T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 43179 FinalReads_ASVpipeline 10536 sampling_induced_expectorated expectorated barcode BSP0713 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 63354.36 templateDNA_16SqPCR_Cq 22.03828122 templateDNA_16SqPCR 0.0449375 well G11 plate_number P4 barcode_806R 806rcbc383 index_sequence TAACAAGGAACG DOB 2002-11-18T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2018-08 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2010-11-21T00:00:00 datehiv 2010-11-04T00:00:00 ageyart 8.01 duryart 7.7 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.577097018 weight 47.6 f24mrcscore 1 FEV1_baseline 1.899999976 FEVpcpred 79.32872083 FVC 2.110625029 FVCZ -1.553958582 FVCpcpred 79.80682514 FEV1FVC 0.900207261 FEV1FVCZ -0.133112937 cd4 288 vload 34000 zwauk -1.2439224 zhauk -2.2038777 zbmiuk 0.15830012 vllog 4.5314789 endtreatdate ['NA', '2019-07-04T00:00:00'] sp05time 09:30:00 all_3 no visit012 yes visit1218 no visit018 no only2visits yes one_visit no endfollowup 2019-07-04T00:00:00 dow NA dod NA lastvisit 12 mths visittotno 5 lastvisitdate 2019-07-04T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548172 SAMN22246669 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-08-29 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1236 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 18.8 ethnicity black host_occupation missing host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 19.008612 host_height 60.23087584 samp_size ['1', ''] study_complt_stat study ended isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2018-08-20T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 32218 FinalReads_ASVpipeline 5896 sampling_induced_expectorated expectorated barcode BSP0510 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 69091.39 templateDNA_16SqPCR_Cq 21.98010622 templateDNA_16SqPCR 0.049006799 well E03 plate_number P2 barcode_806R 806rcbc124 index_sequence ATACTTCGCAGG DOB 1999-10-08T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2018-08 attendschool no rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2010-11-01T00:00:00 datehiv 2010-09-03T00:00:00 ageyart 11.07 duryart 7.82 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -3.0202076 weight 36.2 f24mrcscore 2 FEV1_baseline 1.35 FEVpcpred 60.23087584 FVC 1.465000033 FVCZ -3.32179854 FVCpcpred 58.99155867 FEV1FVC 0.921501702 FEV1FVCZ 0.295211781 cd4 605 vload 43 zwauk -5.9097877 zhauk -5.6292415 zbmiuk -1.1566772 vllog 1.6334685 endtreatdate ['2019-07-31T00:00:00', '2019-07-31T00:00:00'] sp05time 10:05:00 all_3 no visit012 yes visit1218 no visit018 no only2visits yes one_visit no endfollowup 2019-07-31T00:00:00 dow NA dod NA lastvisit 12 mths visittotno 5 lastvisitdate 2019-07-31T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548173 SAMN22246670 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-09-04 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1241 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 19.5 ethnicity black host_occupation missing host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 25.937485 host_height 74.08491665 samp_size ['1', ''] study_complt_stat study ended isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2018-08-28T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 30058 FinalReads_ASVpipeline 9695 sampling_induced_expectorated expectorated barcode BSP0518 sequencing_controls no sequencing_control_details NA WRrepeats AF WRrepeats_WP AF WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 50920.11 templateDNA_16SqPCR_Cq 22.43804236 templateDNA_16SqPCR 0.036117837 well G05 plate_number P2 barcode_806R 806rcbc142 index_sequence TTGATGCTATGC DOB 1999-02-12T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2018-09 attendschool no rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2006-09-15T00:00:00 datehiv 2006-08-15T00:00:00 ageyart 7.59 duryart 11.97 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.9637153 weight 60.4 f24mrcscore 1 FEV1_baseline 1.86 FEVpcpred 74.08491665 FVC 2.457499981 FVCZ -0.945464729 FVCpcpred 87.47366468 FEV1FVC 0.756866746 FEV1FVCZ -1.980691829 cd4 753 vload 0 zwauk 0.27858588 zhauk -1.8268025 zbmiuk 1.3042775 vllog 0 endtreatdate ['2019-08-06T00:00:00', '2019-08-06T00:00:00'] sp05time 09:50:00 all_3 no visit012 yes visit1218 no visit018 no only2visits yes one_visit no endfollowup 2019-08-06T00:00:00 dow NA dod NA lastvisit 12 mths visittotno 5 lastvisitdate 2019-08-06T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548174 SAMN22246731 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-08-06 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1241 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 20.4 ethnicity black host_occupation missing host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 24.800745 host_height 78.80132834 samp_size ['1.5', ''] study_complt_stat study ended isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2019-08-06T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 42784 FinalReads_ASVpipeline 17600 sampling_induced_expectorated expectorated barcode BSP0736 sequencing_controls no sequencing_control_details NA WRrepeats AZ WRrepeats_WP AZ WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 1041991.47 templateDNA_16SqPCR_Cq 17.90833654 templateDNA_16SqPCR 0.739088701 well G07 plate_number P2 barcode_806R 806rcbc158 index_sequence CCTCTCGTGATC DOB 1999-02-12T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2018-09 attendschool no rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2006-09-15T00:00:00 datehiv 2006-08-15T00:00:00 ageyart 7.59 duryart 11.97 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.61120024 weight 59.2 f24mrcscore 1 FEV1_baseline 2.029999971 FEVpcpred 78.80132834 FVC 2.678750038 FVCZ -0.568147176 FVCpcpred 92.41666782 FEV1FVC 0.757816124 FEV1FVCZ -1.910009189 cd4 497 vload 0 zwauk 0.12651594 zhauk -1.5156404 zbmiuk 0.94306606 vllog 0 endtreatdate ['NA', '2019-08-06T00:00:00'] sp05time 09:45:00 all_3 no visit012 yes visit1218 no visit018 no only2visits yes one_visit no endfollowup 2019-08-06T00:00:00 dow NA dod NA lastvisit 12 mths visittotno 5 lastvisitdate 2019-08-06T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548175 SAMN22246602 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2017-09-05 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id C106 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 11.2 ethnicity black host_occupation student host_disease No HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 18.43622 host_height 108.0442963 samp_size ['2', ''] study_complt_stat not applicable isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group comparison group visit Week 0 visit_date 2017-09-05T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 45651 FinalReads_ASVpipeline 14343 sampling_induced_expectorated expectorated barcode BSP0160 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 426008.88 templateDNA_16SqPCR_Cq 19.32764701 templateDNA_16SqPCR 0.302169793 well C09 plate_number P1 barcode_806R 806rcbc74 index_sequence CAAGCATGCCTA DOB 2006-06-06T00:00:00 trial_arm not applicable adherence not applicable enrolmonth NA attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2007-10-01T00:00:00 datehiv 2007-06-15T00:00:00 ageyart 1.32 duryart 9.93 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z 0.64262778 weight 34.2 f24mrcscore 1 FEV1_baseline 1.8 FEVpcpred 108.0442963 FVC 2.105000019 FVCZ 0.836703629 FVCpcpred 110.4333626 FEV1FVC 0.855106858 FEV1FVCZ -0.348662054 cd4 668 vload 39 zwauk -0.20430756 zhauk -1.2323589 zbmiuk 0.65699458 vllog NA endtreatdate ['NA', 'not applicable'] sp05time 11:15:00 all_3 not applicable visit012 not applicable visit1218 not applicable visit018 not applicable only2visits not applicable one_visit yes endfollowup not applicable dow not applicable dod not applicable lastvisit not applicable visittotno not applicable lastvisitdate not applicable treatstopreason not applicable cough_enrl not applicable cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m not applicable hospitalised12m not applicable reason_hospi not applicable antibiotic12m not applicable any3_reasons not applicable BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548176 SAMN22246588 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2017-03-29 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1021 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 16.3 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage NA host_hiv_stat yes host_body_mass_index not applicable host_height not applicable samp_size ['not applicable', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit 6m visit_date not applicable run_processing_batch R1 sample_type SP RawReads_ASVpipeline 30136 FinalReads_ASVpipeline 10384 sampling_induced_expectorated expectorated barcode BSP0066 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 67559.19 templateDNA_16SqPCR_Cq 22.03 templateDNA_16SqPCR 0.04792 well E01 plate_number P4 barcode_806R 806rcbc301 index_sequence TACGGGTCTTTA DOB 2000-11-18T00:00:00 trial_arm Placebo adherence Not Adherent enrolmonth 2016-10 attendschool yes rs15antibty NA rs14antib no dateart 2013-03-06T00:00:00 datehiv 2012-05-09T00:00:00 ageyart 12.3 duryart 3.6 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z not applicable weight not applicable f24mrcscore not applicable FEV1_baseline not applicable FEVpcpred not applicable FVC not applicable FVCZ not applicable FVCpcpred not applicable FEV1FVC not applicable FEV1FVCZ not applicable cd4 not applicable vload not applicable zwauk not applicable zhauk not applicable zbmiuk not applicable vllog not applicable endtreatdate ['not applicable', '2017-09-12T00:00:00'] sp05time not applicable all_3 not applicable visit012 not applicable visit1218 not applicable visit018 not applicable only2visits not applicable one_visit not applicable endfollowup 2018-02-27T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2018-02-27T00:00:00 treatstopreason Completed cough_enrl yes cotrimoxazole yes adm no nadm NA tbtreat yes acut_exac12m not applicable hospitalised12m not applicable reason_hospi not applicable antibiotic12m not applicable any3_reasons not applicable BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548177 SAMN22246655 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-07-18 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1105 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 17.2 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage NA host_hiv_stat yes host_body_mass_index 18.129013 host_height 77.856155 samp_size ['2', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2018-07-18T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 52636 FinalReads_ASVpipeline 11259 sampling_induced_expectorated expectorated barcode BSP0460 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 12496.89 templateDNA_16SqPCR_Cq 24.54602847 templateDNA_16SqPCR 0.008864092 well D10 plate_number P2 barcode_806R 806rcbc179 index_sequence AACCGCGGTCAA DOB 2001-04-01T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2017-08 attendschool yes rs15antibty NA rs14antib no dateart 2014-01-15T00:00:00 datehiv 2013-12-15T00:00:00 ageyart 12.79 duryart 3.58 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.673105117 weight 45.2 f24mrcscore 1 FEV1_baseline 2.289999962 FEVpcpred 77.856155 FVC 2.561249971 FVCZ -1.856104018 FVCpcpred 76.97432839 FEV1FVC 0.894094675 FEV1FVCZ 0.127558399 cd4 847 vload 1730 zwauk -2.8102677 zhauk -2.595819 zbmiuk -1.2499149 vllog 3.2380462 endtreatdate ['NA', '2018-07-18T00:00:00'] sp05time 09:02:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2018-12-13T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2018-12-13T00:00:00 treatstopreason Completed cough_enrl yes cotrimoxazole yes adm no nadm NA tbtreat yes acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548178 SAMN22246597 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2017-08-21 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id C114 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 16.8 ethnicity black host_occupation student host_disease No HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 18.19795 host_height 115.0214598 samp_size ['1', ''] study_complt_stat not applicable isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group comparison group visit Week 0 visit_date 2017-08-21T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 53564 FinalReads_ASVpipeline 17701 sampling_induced_expectorated expectorated barcode BSP0148 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 48215.06 templateDNA_16SqPCR_Cq 22.44044701 templateDNA_16SqPCR 0.034199133 well D12 plate_number P4 barcode_806R 806rcbc3 index_sequence ACACCTGGTGAT DOB 2000-10-28T00:00:00 trial_arm not applicable adherence not applicable enrolmonth NA attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2008-11-04T00:00:00 datehiv 2005-10-15T00:00:00 ageyart 8.02 duryart 8.79 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z 1.1787196 weight 41 f24mrcscore 1 FEV1_baseline 2.76 FEVpcpred 115.0214598 FVC 2.924999952 FVCZ 0.77269476 FVCpcpred 110.3353781 FEV1FVC 0.943589756 FEV1FVCZ 0.667107563 cd4 825 vload 92 zwauk -2.4689987 zhauk -2.2107267 zbmiuk -1.131097 vllog NA endtreatdate ['NA', 'not applicable'] sp05time 11:13:00 all_3 not applicable visit012 not applicable visit1218 not applicable visit018 not applicable only2visits not applicable one_visit yes endfollowup not applicable dow not applicable dod not applicable lastvisit not applicable visittotno not applicable lastvisitdate not applicable treatstopreason not applicable cough_enrl not applicable cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m not applicable hospitalised12m not applicable reason_hospi not applicable antibiotic12m not applicable any3_reasons not applicable BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548179 SAMN22246599 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2017-08-30 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id C115 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 16.6 ethnicity black host_occupation student host_disease No HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 18.844103 host_height 114.7429581 samp_size ['2', ''] study_complt_stat not applicable isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group comparison group visit Week 0 visit_date 2017-08-30T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 49398 FinalReads_ASVpipeline 18812 sampling_induced_expectorated expectorated barcode BSP0155 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 81995.43 templateDNA_16SqPCR_Cq 21.71812749 templateDNA_16SqPCR 0.058159684 well H03 plate_number P1 barcode_806R 806rcbc31 index_sequence TAGCTCGTAACT DOB 2001-01-17T00:00:00 trial_arm not applicable adherence not applicable enrolmonth NA attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2005-11-30T00:00:00 datehiv 2005-06-25T00:00:00 ageyart 4.87 duryart 11.75 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z 1.1566737 weight 48 f24mrcscore 1 FEV1_baseline 3.13 FEVpcpred 114.7429581 FVC 3.597500086 FVCZ 1.368064984 FVCpcpred 118.4007252 FEV1FVC 0.870048656 FEV1FVCZ -0.537570518 cd4 1557 vload 40 zwauk -1.1787268 zhauk -0.6360693 zbmiuk -0.78167588 vllog NA endtreatdate ['NA', 'not applicable'] sp05time 11:06:00 all_3 not applicable visit012 not applicable visit1218 not applicable visit018 not applicable only2visits not applicable one_visit yes endfollowup not applicable dow not applicable dod not applicable lastvisit not applicable visittotno not applicable lastvisitdate not applicable treatstopreason not applicable cough_enrl not applicable cotrimoxazole yes adm no nadm NA tbtreat yes acut_exac12m not applicable hospitalised12m not applicable reason_hospi not applicable antibiotic12m not applicable any3_reasons not applicable BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548180 SAMN22246589 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2017-06-13 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id C125 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 18 ethnicity black host_occupation student host_disease No HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 22.512978 host_height 106.8781555 samp_size ['2', ''] study_complt_stat not applicable isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group comparison group visit Week 0 visit_date 2017-06-13T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 37473 FinalReads_ASVpipeline 10674 sampling_induced_expectorated expectorated barcode BSP0097 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 722257.33 templateDNA_16SqPCR_Cq 18.53 templateDNA_16SqPCR 0.5123 well C01 plate_number P4 barcode_806R 806rcbc299 index_sequence TGCACAATGGCG DOB 1999-06-05T00:00:00 trial_arm not applicable adherence not applicable enrolmonth NA attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2010-12-01T00:00:00 datehiv 2004-10-05T00:00:00 ageyart 11.49 duryart 6.53 artdrug1stline no artdrug2ndline yes artreg ATV/LPV/PI fev1z 0.53628421 weight 53.6 f24mrcscore 1 FEV1_baseline 2.74 FEVpcpred 106.8781555 FVC 2.980624914 FVCZ 0.326671159 FVCpcpred 104.3706647 FEV1FVC 0.919270317 FEV1FVCZ 0.313616617 cd4 56 vload 120000 zwauk -0.51282042 zhauk -1.5341305 zbmiuk 0.4600563 vllog NA endtreatdate ['NA', 'not applicable'] sp05time 11:02:00 all_3 not applicable visit012 not applicable visit1218 not applicable visit018 not applicable only2visits not applicable one_visit yes endfollowup not applicable dow not applicable dod not applicable lastvisit not applicable visittotno not applicable lastvisitdate not applicable treatstopreason not applicable cough_enrl not applicable cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m not applicable hospitalised12m not applicable reason_hospi not applicable antibiotic12m not applicable any3_reasons not applicable BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548181 SAMN22246629 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-03-19 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id C120 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 17.3 ethnicity black host_occupation student host_disease No HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 22.332275 host_height 110.1014595 samp_size ['2', ''] study_complt_stat not applicable isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group comparison group visit Week 0 visit_date 2018-03-19T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 37935 FinalReads_ASVpipeline 10415 sampling_induced_expectorated expectorated barcode BSP0352 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 842349.96 templateDNA_16SqPCR_Cq 18.33864448 templateDNA_16SqPCR 0.59748218 well B10 plate_number P1 barcode_806R 806rcbc81 index_sequence ACATTCAGCGCA DOB 2000-11-02T00:00:00 trial_arm not applicable adherence not applicable enrolmonth NA attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2015-12-28T00:00:00 datehiv 2015-12-22T00:00:00 ageyart 15.15 duryart 2.22 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z 0.78974009 weight 54 f24mrcscore 1 FEV1_baseline 2.86 FEVpcpred 110.1014595 FVC 3.24000001 FVCZ 0.902755428 FVCpcpred 112.123392 FEV1FVC 0.882716014 FEV1FVCZ -0.341366101 cd4 700 vload 0 zwauk -0.40593788 zhauk -1.3252877 zbmiuk 0.47415602 vllog NA endtreatdate ['NA', 'not applicable'] sp05time 12:00:00 all_3 not applicable visit012 not applicable visit1218 not applicable visit018 not applicable only2visits not applicable one_visit yes endfollowup not applicable dow not applicable dod not applicable lastvisit not applicable visittotno not applicable lastvisitdate not applicable treatstopreason not applicable cough_enrl not applicable cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m not applicable hospitalised12m not applicable reason_hospi not applicable antibiotic12m not applicable any3_reasons not applicable BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548182 SAMN22246620 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-02-08 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id C124 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 18.5 ethnicity black host_occupation student host_disease No HIV-associated chronic lung disease drug_usage NA host_hiv_stat yes host_body_mass_index 17.819952 host_height 102.0078329 samp_size ['NA', ''] study_complt_stat not applicable isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group comparison group visit Week 0 visit_date 2018-02-08T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 44810 FinalReads_ASVpipeline 17129 sampling_induced_expectorated expectorated barcode BSP0299 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 94634.21 templateDNA_16SqPCR_Cq 21.50803947 templateDNA_16SqPCR 0.067124425 well E05 plate_number P2 barcode_806R 806rcbc140 index_sequence CGCCAAATAACC DOB 1999-07-13T00:00:00 trial_arm not applicable adherence not applicable enrolmonth NA attendschool yes rs15antibty NA rs14antib NA dateart 2009-11-04T00:00:00 datehiv 2009-06-08T00:00:00 ageyart 10.31 duryart 8.26 artdrug1stline no artdrug2ndline yes artreg ATV/LPV/PI fev1z 0.15590861 weight 43.2 f24mrcscore 1 FEV1_baseline 2.67 FEVpcpred 102.0078329 FVC 3.087500095 FVCZ 0.41145365 FVCpcpred 105.5224265 FEV1FVC 0.864777326 FEV1FVCZ -0.565437365 cd4 384 vload 80 zwauk -2.2416849 zhauk -1.3112925 zbmiuk -1.6060216 vllog NA endtreatdate ['NA', 'not applicable'] sp05time NA all_3 not applicable visit012 not applicable visit1218 not applicable visit018 not applicable only2visits not applicable one_visit yes endfollowup not applicable dow not applicable dod not applicable lastvisit not applicable visittotno not applicable lastvisitdate not applicable treatstopreason not applicable cough_enrl not applicable cotrimoxazole no adm yes nadm 1 tbtreat no acut_exac12m not applicable hospitalised12m not applicable reason_hospi not applicable antibiotic12m not applicable any3_reasons not applicable BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548183 SAMN22246591 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2017-07-18 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id C127 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 17.2 ethnicity black host_occupation student host_disease No HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 18.933718 host_height 108.1815444 samp_size ['1', ''] study_complt_stat not applicable isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group comparison group visit Week 0 visit_date 2017-07-18T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 40884 FinalReads_ASVpipeline 15418 sampling_induced_expectorated expectorated barcode BSP0122 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 408027.95 templateDNA_16SqPCR_Cq 19.29515922 templateDNA_16SqPCR 0.289415851 well E11 plate_number P4 barcode_806R 806rcbc381 index_sequence TGTCTTGATAGC DOB 2000-04-10T00:00:00 trial_arm not applicable adherence not applicable enrolmonth NA attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2008-07-04T00:00:00 datehiv 2007-10-08T00:00:00 ageyart 8.23 duryart 9.04 artdrug1stline no artdrug2ndline no artreg NA fev1z 0.63076794 weight 50.8 f24mrcscore 1 FEV1_baseline 3.45 FEVpcpred 108.1815444 FVC 3.539375067 FVCZ -0.206973798 FVCpcpred 97.41746377 FEV1FVC 0.974748362 FEV1FVCZ 1.624843643 cd4 502 vload 39 zwauk -1.8417726 zhauk -1.7612674 zbmiuk -0.80323088 vllog NA endtreatdate ['NA', 'not applicable'] sp05time 10:25:00 all_3 not applicable visit012 not applicable visit1218 not applicable visit018 not applicable only2visits not applicable one_visit yes endfollowup not applicable dow not applicable dod not applicable lastvisit not applicable visittotno not applicable lastvisitdate not applicable treatstopreason not applicable cough_enrl not applicable cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m not applicable hospitalised12m not applicable reason_hospi not applicable antibiotic12m not applicable any3_reasons not applicable BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548184 SAMN22246639 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-05-24 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id C132 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 15.6 ethnicity black host_occupation student host_disease No HIV-associated chronic lung disease drug_usage NA host_hiv_stat yes host_body_mass_index 20.858433 host_height 101.5833334 samp_size ['1', ''] study_complt_stat not applicable isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group comparison group visit Week 0 visit_date 2018-05-24T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 37227 FinalReads_ASVpipeline 11980 sampling_induced_expectorated expectorated barcode BSP0405 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats K EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 328068.09 templateDNA_16SqPCR_Cq 19.69 templateDNA_16SqPCR 0.2327 well A01 plate_number P2 barcode_806R 806rcbc104 index_sequence GCTTCGGTAGAT DOB 2002-10-12T00:00:00 trial_arm not applicable adherence not applicable enrolmonth NA attendschool yes rs15antibty NA rs14antib yes dateart 2011-06-15T00:00:00 datehiv 2010-06-15T00:00:00 ageyart 8.67 duryart 6.94 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z 0.11892991 weight 54 f24mrcscore 1 FEV1_baseline 2.95 FEVpcpred 101.5833334 FVC 3.448750019 FVCZ 0.364052159 FVCpcpred 104.541932 FEV1FVC 0.855382394 FEV1FVCZ -0.410415745 cd4 1011 vload 39 zwauk -0.49892703 zhauk -1.4104795 zbmiuk 0.46491414 vllog NA endtreatdate ['NA', 'not applicable'] sp05time 11:50:00 all_3 not applicable visit012 not applicable visit1218 not applicable visit018 not applicable only2visits not applicable one_visit yes endfollowup not applicable dow not applicable dod not applicable lastvisit not applicable visittotno not applicable lastvisitdate not applicable treatstopreason not applicable cough_enrl not applicable cotrimoxazole no adm no nadm NA tbtreat no acut_exac12m not applicable hospitalised12m not applicable reason_hospi not applicable antibiotic12m not applicable any3_reasons not applicable BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548185 SAMN22246598 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2017-08-28 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id C130 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 19.3 ethnicity black host_occupation student host_disease No HIV-associated chronic lung disease drug_usage NA host_hiv_stat yes host_body_mass_index 21.103519 host_height 103.7828012 samp_size ['1.5', ''] study_complt_stat not applicable isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group comparison group visit Week 0 visit_date 2017-08-28T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 34593 FinalReads_ASVpipeline 9703 sampling_induced_expectorated expectorated barcode BSP0153 sequencing_controls no sequencing_control_details NA WRrepeats H WRrepeats_WP H WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 663654.81 templateDNA_16SqPCR_Cq 18.4996447 templateDNA_16SqPCR 0.471 well H07 plate_number P3 barcode_806R 806rcbc256 index_sequence CACATGCCTAAG DOB 1998-04-21T00:00:00 trial_arm not applicable adherence not applicable enrolmonth NA attendschool yes rs15antibty NA rs14antib no dateart 2009-05-15T00:00:00 datehiv 2007-06-02T00:00:00 ageyart 11.07 duryart 8.29 artdrug1stline no artdrug2ndline yes artreg ATV/LPV/PI fev1z 0.29388595 weight 47.8 f24mrcscore 1 FEV1_baseline 2.53 FEVpcpred 103.7828012 FVC 2.58375001 FVCZ -0.376932807 FVCpcpred 94.97379364 FEV1FVC 0.979196889 FEV1FVCZ 1.524121117 cd4 276 vload 83700 zwauk -1.4516779 zhauk -2.1739686 zbmiuk -0.17832166 vllog NA endtreatdate ['NA', 'not applicable'] sp05time 13:35:00 all_3 not applicable visit012 not applicable visit1218 not applicable visit018 not applicable only2visits not applicable one_visit yes endfollowup not applicable dow not applicable dod not applicable lastvisit not applicable visittotno not applicable lastvisitdate not applicable treatstopreason not applicable cough_enrl not applicable cotrimoxazole no adm no nadm NA tbtreat no acut_exac12m not applicable hospitalised12m not applicable reason_hospi not applicable antibiotic12m not applicable any3_reasons not applicable BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548186 SAMN22246678 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-12-13 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1105 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 17.7 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage NA host_hiv_stat yes host_body_mass_index 17.578125 host_height 79.87063626 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 72 visit_date 2018-12-13T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 48586 FinalReads_ASVpipeline 11401 sampling_induced_expectorated expectorated barcode BSP0572 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 13057.96 templateDNA_16SqPCR_Cq 24.48012503 templateDNA_16SqPCR 0.009262066 well D11 plate_number P2 barcode_806R 806rcbc187 index_sequence AGCCGGCACATA DOB 2001-04-01T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2017-08 attendschool yes rs15antibty NA rs14antib no dateart 2014-01-15T00:00:00 datehiv 2013-12-15T00:00:00 ageyart 12.79 duryart 3.58 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.532043372 weight 45 f24mrcscore 1 FEV1_baseline 2.4400000569999998 FEVpcpred 79.87063626 FVC 2.631249905 FVCZ -1.946480815 FVCpcpred 75.85338242 FEV1FVC 0.92731597 FEV1FVCZ 0.714484403 cd4 NA vload 0 zwauk -3.0828524 zhauk -2.3954706 zbmiuk -1.6949793 vllog 0 endtreatdate ['NA', '2018-07-18T00:00:00'] sp05time 09:00:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2018-12-13T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2018-12-13T00:00:00 treatstopreason Completed cough_enrl yes cotrimoxazole yes adm no nadm NA tbtreat yes acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548187 SAMN22246593 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2017-08-07 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id C129 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 17.3 ethnicity black host_occupation student host_disease No HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 22.639568 host_height 101.722586 samp_size ['2', ''] study_complt_stat not applicable isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group comparison group visit Week 0 visit_date 2017-08-07T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 48568 FinalReads_ASVpipeline 19756 sampling_induced_expectorated expectorated barcode BSP0135 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 725220.96 templateDNA_16SqPCR_Cq 18.36706393 templateDNA_16SqPCR 0.514402116 well E04 plate_number P3 barcode_806R 806rcbc229 index_sequence TTCCGTAGGGAT DOB 2000-04-10T00:00:00 trial_arm not applicable adherence not applicable enrolmonth NA attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2007-07-09T00:00:00 datehiv 2007-06-15T00:00:00 ageyart 7.24 duryart 10.08 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z 0.13384104 weight 50.6 f24mrcscore 1 FEV1_baseline 2.43 FEVpcpred 101.722586 FVC 2.711874962 FVCZ 0.198123256 FVCpcpred 102.6389904 FEV1FVC 0.896059037 FEV1FVCZ -0.183612412 cd4 207 vload 2590 zwauk -0.8813225 zhauk -2.3166213 zbmiuk 0.57916379 vllog NA endtreatdate ['NA', 'not applicable'] sp05time 11:49:00 all_3 not applicable visit012 not applicable visit1218 not applicable visit018 not applicable only2visits not applicable one_visit yes endfollowup not applicable dow not applicable dod not applicable lastvisit not applicable visittotno not applicable lastvisitdate not applicable treatstopreason not applicable cough_enrl not applicable cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m not applicable hospitalised12m not applicable reason_hospi not applicable antibiotic12m not applicable any3_reasons not applicable BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548188 SAMN22246640 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-05-30 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id C133 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 14.8 ethnicity black host_occupation student host_disease No HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 22.911436 host_height 107.8416682 samp_size ['2', ''] study_complt_stat not applicable isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group comparison group visit Week 0 visit_date 2018-05-30T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 49589 FinalReads_ASVpipeline 19890 sampling_induced_expectorated expectorated barcode BSP0412 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 49048.08 templateDNA_16SqPCR_Cq 22.5 templateDNA_16SqPCR 0.03479 well E02 plate_number P1 barcode_806R 806rcbc20 index_sequence GGATCGCAGATC DOB 2003-07-15T00:00:00 trial_arm not applicable adherence not applicable enrolmonth NA attendschool yes rs15antibty COTRIMOXAZOLE rs14antib no dateart 2013-07-15T00:00:00 datehiv 2008-06-15T00:00:00 ageyart 10 duryart 4.87 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z 0.61209416 weight 58.8 f24mrcscore 1 FEV1_baseline 2.88 FEVpcpred 107.8416682 FVC 3.182499886 FVCZ 0.536119692 FVCpcpred 107.0783941 FEV1FVC 0.904949008 FEV1FVCZ 0.055976608 cd4 202 vload 3480 zwauk 0.66777509 zhauk -0.28043476 zbmiuk 1.0110408 vllog NA endtreatdate ['NA', 'not applicable'] sp05time 10:35:00 all_3 not applicable visit012 not applicable visit1218 not applicable visit018 not applicable only2visits not applicable one_visit yes endfollowup not applicable dow not applicable dod not applicable lastvisit not applicable visittotno not applicable lastvisitdate not applicable treatstopreason not applicable cough_enrl not applicable cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m not applicable hospitalised12m not applicable reason_hospi not applicable antibiotic12m not applicable any3_reasons not applicable BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548189 SAMN22246643 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-06-22 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id C137 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 19.1 ethnicity black host_occupation missing host_disease No HIV-associated chronic lung disease drug_usage NONE host_hiv_stat yes host_body_mass_index 20.477295 host_height 118.1286072 samp_size ['1.5', ''] study_complt_stat not applicable isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group comparison group visit Week 0 visit_date 2018-06-22T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 42735 FinalReads_ASVpipeline 16112 sampling_induced_expectorated expectorated barcode BSP0427 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 102973.96 templateDNA_16SqPCR_Cq 21.28426982 templateDNA_16SqPCR 0.073039843 well G08 plate_number P3 barcode_806R 806rcbc263 index_sequence AACGGCAGCATC DOB 1999-05-13T00:00:00 trial_arm not applicable adherence not applicable enrolmonth NA attendschool no rs15antibty NONE rs14antib no dateart 2010-10-25T00:00:00 datehiv 2007-06-15T00:00:00 ageyart 11.45 duryart 7.66 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z 1.4234422 weight 47 f24mrcscore 1 FEV1_baseline 2.92 FEVpcpred 118.1286072 FVC 3.321875095 FVCZ 1.500721448 FVCpcpred 120.4266511 FEV1FVC 0.879021635 FEV1FVCZ -0.34713227 cd4 713 vload 0 zwauk -1.5778122 zhauk -2.0084174 zbmiuk -0.40347627 vllog NA endtreatdate ['NA', 'not applicable'] sp05time 11:29:00 all_3 not applicable visit012 not applicable visit1218 not applicable visit018 not applicable only2visits not applicable one_visit yes endfollowup not applicable dow not applicable dod not applicable lastvisit not applicable visittotno not applicable lastvisitdate not applicable treatstopreason not applicable cough_enrl not applicable cotrimoxazole no adm no nadm NA tbtreat no acut_exac12m not applicable hospitalised12m not applicable reason_hospi not applicable antibiotic12m not applicable any3_reasons not applicable BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548190 SAMN22246646 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-06-28 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id C140 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 15.8 ethnicity black host_occupation student host_disease No HIV-associated chronic lung disease drug_usage NA host_hiv_stat yes host_body_mass_index 18.423161 host_height 103.5077394 samp_size ['2', ''] study_complt_stat not applicable isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group comparison group visit Week 0 visit_date 2018-06-28T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 50134 FinalReads_ASVpipeline 21992 sampling_induced_expectorated expectorated barcode BSP0435 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 40026.03 templateDNA_16SqPCR_Cq 22.7584824 templateDNA_16SqPCR 0.028390625 well G03 plate_number P1 barcode_806R 806rcbc30 index_sequence GTTGGTCAATCT DOB 2002-09-02T00:00:00 trial_arm not applicable adherence not applicable enrolmonth NA attendschool yes rs15antibty NA rs14antib no dateart 2010-01-10T00:00:00 datehiv 2006-06-15T00:00:00 ageyart 7.36 duryart 8.46 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z 0.2642996 weight 46.4 f24mrcscore 1 FEV1_baseline 2.94 FEVpcpred 103.5077394 FVC 3.236249924 FVCZ 0.051293873 FVCpcpred 100.6395034 FEV1FVC 0.908458904 FEV1FVCZ 0.411019254 cd4 702 vload 0 zwauk -1.5811534 zhauk -1.8225394 zbmiuk -0.66588002 vllog NA endtreatdate ['NA', 'not applicable'] sp05time 11:43:00 all_3 not applicable visit012 not applicable visit1218 not applicable visit018 not applicable only2visits not applicable one_visit yes endfollowup not applicable dow not applicable dod not applicable lastvisit not applicable visittotno not applicable lastvisitdate not applicable treatstopreason not applicable cough_enrl not applicable cotrimoxazole no adm no nadm NA tbtreat yes acut_exac12m not applicable hospitalised12m not applicable reason_hospi not applicable antibiotic12m not applicable any3_reasons not applicable BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548191 SAMN22246621 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-02-09 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id C136 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 18.7 ethnicity black host_occupation student host_disease No HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 19.458214 host_height 110.5890346 samp_size ['1', ''] study_complt_stat not applicable isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group comparison group visit Week 0 visit_date 2018-02-09T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 41992 FinalReads_ASVpipeline 8999 sampling_induced_expectorated expectorated barcode BSP0301 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats I EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 10061.57 templateDNA_16SqPCR_Cq 24.7600382 templateDNA_16SqPCR 0.007136711 well A08 plate_number P3 barcode_806R 806rcbc257 index_sequence TGCTATATCTGG DOB 1999-05-16T00:00:00 trial_arm not applicable adherence not applicable enrolmonth NA attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2013-05-09T00:00:00 datehiv 2013-05-09T00:00:00 ageyart 13.98 duryart 4.76 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z 0.8273564 weight 50 f24mrcscore 1 FEV1_baseline 3.08 FEVpcpred 110.5890346 FVC 3.482500076 FVCZ 0.83909743 FVCpcpred 111.323615 FEV1FVC 0.884422069 FEV1FVCZ -0.191965765 cd4 978 vload 39 zwauk -1.0757221 zhauk -0.54967773 zbmiuk -0.8035996 vllog NA endtreatdate ['NA', 'not applicable'] sp05time 10:15:00 all_3 not applicable visit012 not applicable visit1218 not applicable visit018 not applicable only2visits not applicable one_visit yes endfollowup not applicable dow not applicable dod not applicable lastvisit not applicable visittotno not applicable lastvisitdate not applicable treatstopreason not applicable cough_enrl not applicable cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m not applicable hospitalised12m not applicable reason_hospi not applicable antibiotic12m not applicable any3_reasons not applicable BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548192 SAMN22246608 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2017-10-02 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id C144 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 18.8 ethnicity black host_occupation missing host_disease No HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 25.412312 host_height 102.9986314 samp_size ['1', ''] study_complt_stat not applicable isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group comparison group visit Week 0 visit_date 2017-10-02T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 44309 FinalReads_ASVpipeline 14852 sampling_induced_expectorated expectorated barcode BSP0202 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 422419.28 templateDNA_16SqPCR_Cq 19.26319873 templateDNA_16SqPCR 0.299623674 well G11 plate_number P2 barcode_806R 806rcbc190 index_sequence ACACTAGATCCG DOB 1998-11-19T00:00:00 trial_arm not applicable adherence not applicable enrolmonth NA attendschool no rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2007-06-15T00:00:00 datehiv 2007-06-01T00:00:00 ageyart 8.57 duryart 10.3 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z 0.23295203 weight 63.6 f24mrcscore 1 FEV1_baseline 2.79 FEVpcpred 102.9986314 FVC 3.08375001 FVCZ 0.111298549 FVCpcpred 101.4902609 FEV1FVC 0.904742587 FEV1FVCZ 0.145030583 cd4 506 vload 24500 zwauk 0.6479789 zhauk -0.89917445 zbmiuk 1.2219561 vllog NA endtreatdate ['NA', 'not applicable'] sp05time 14:00:00 all_3 not applicable visit012 not applicable visit1218 not applicable visit018 not applicable only2visits not applicable one_visit yes endfollowup not applicable dow not applicable dod not applicable lastvisit not applicable visittotno not applicable lastvisitdate not applicable treatstopreason not applicable cough_enrl not applicable cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m not applicable hospitalised12m not applicable reason_hospi not applicable antibiotic12m not applicable any3_reasons not applicable BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548193 SAMN22246654 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-07-17 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id C141 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 18.8 ethnicity black host_occupation student host_disease No HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 21.94219 host_height 115.9109837 samp_size ['1', ''] study_complt_stat not applicable isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group comparison group visit Week 0 visit_date 2018-07-17T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 45249 FinalReads_ASVpipeline 18704 sampling_induced_expectorated expectorated barcode BSP0459 sequencing_controls no sequencing_control_details NA WRrepeats Y WRrepeats_WP Y WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 42812.65 templateDNA_16SqPCR_Cq 22.59588037 templateDNA_16SqPCR 0.030367183 well G07 plate_number P3 barcode_806R 806rcbc255 index_sequence CACGAGGTCATT DOB 1999-09-16T00:00:00 trial_arm not applicable adherence not applicable enrolmonth NA attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2011-05-18T00:00:00 datehiv 2011-05-01T00:00:00 ageyart 11.67 duryart 7.16 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z 1.2594075 weight 58.8 f24mrcscore 1 FEV1_baseline 3.79 FEVpcpred 115.9109837 FVC 4.150000095 FVCZ 0.865064932 FVCpcpred 110.84324 FEV1FVC 0.913252982 FEV1FVCZ 0.565829082 cd4 336 vload 607 zwauk -1.1673181 zhauk -1.9461877 zbmiuk 0.18796386 vllog NA endtreatdate ['NA', 'not applicable'] sp05time 11:25:00 all_3 not applicable visit012 not applicable visit1218 not applicable visit018 not applicable only2visits not applicable one_visit yes endfollowup not applicable dow not applicable dod not applicable lastvisit not applicable visittotno not applicable lastvisitdate not applicable treatstopreason not applicable cough_enrl not applicable cotrimoxazole yes adm no nadm NA tbtreat yes acut_exac12m not applicable hospitalised12m not applicable reason_hospi not applicable antibiotic12m not applicable any3_reasons not applicable BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548194 SAMN22246634 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-04-06 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id C145 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 8.7 ethnicity black host_occupation student host_disease No HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 15.446013 host_height 101.7881447 samp_size ['1', ''] study_complt_stat not applicable isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group comparison group visit Week 0 visit_date 2018-04-06T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 44799 FinalReads_ASVpipeline 15716 sampling_induced_expectorated expectorated barcode BSP0370 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 659833.95 templateDNA_16SqPCR_Cq 18.58728086 templateDNA_16SqPCR 0.468022849 well D11 plate_number P4 barcode_806R 806rcbc380 index_sequence CCAATCACTATG DOB 2009-07-04T00:00:00 trial_arm not applicable adherence not applicable enrolmonth NA attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2014-10-12T00:00:00 datehiv 2014-10-01T00:00:00 ageyart 5.27 duryart 3.48 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z 0.13767284 weight 24.6 f24mrcscore 1 FEV1_baseline 1.36 FEVpcpred 101.7881447 FVC 1.379374981 FVCZ -0.656580725 FVCpcpred 91.55567164 FEV1FVC 0.985953807 FEV1FVCZ 1.837012572 cd4 805 vload 76400 zwauk -0.8295691 zhauk -1.0146418 zbmiuk -0.32736528 vllog NA endtreatdate ['NA', 'not applicable'] sp05time 13:30:00 all_3 not applicable visit012 not applicable visit1218 not applicable visit018 not applicable only2visits not applicable one_visit yes endfollowup not applicable dow not applicable dod not applicable lastvisit not applicable visittotno not applicable lastvisitdate not applicable treatstopreason not applicable cough_enrl not applicable cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m not applicable hospitalised12m not applicable reason_hospi not applicable antibiotic12m not applicable any3_reasons not applicable BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548195 SAMN22246637 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-04-12 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id C146 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 12.1 ethnicity black host_occupation student host_disease No HIV-associated chronic lung disease drug_usage NA host_hiv_stat yes host_body_mass_index 15.734176 host_height 102.2847767 samp_size ['2', ''] study_complt_stat not applicable isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group comparison group visit Week 0 visit_date 2018-04-12T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 38524 FinalReads_ASVpipeline 9613 sampling_induced_expectorated expectorated barcode BSP0377 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 45157.95 templateDNA_16SqPCR_Cq 22.61824962 templateDNA_16SqPCR 0.032030716 well B10 plate_number P2 barcode_806R 806rcbc177 index_sequence CTACCGGATCAA DOB 2006-02-18T00:00:00 trial_arm not applicable adherence not applicable enrolmonth NA attendschool yes rs15antibty NA rs14antib NA dateart 2014-06-03T00:00:00 datehiv 2010-03-29T00:00:00 ageyart 8.29 duryart 3.86 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z 0.17835903 weight 30.4 f24mrcscore 1 FEV1_baseline 1.83 FEVpcpred 102.2847767 FVC 2.148124933 FVCZ 0.421257139 FVCpcpred 105.2328337 FEV1FVC 0.851905778 FEV1FVCZ -0.435240623 cd4 993 vload 484 zwauk -1.5073247 zhauk -1.3981742 zbmiuk -1.028089 vllog NA endtreatdate ['NA', 'not applicable'] sp05time 11:36:00 all_3 not applicable visit012 not applicable visit1218 not applicable visit018 not applicable only2visits not applicable one_visit yes endfollowup not applicable dow not applicable dod not applicable lastvisit not applicable visittotno not applicable lastvisitdate not applicable treatstopreason not applicable cough_enrl not applicable cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m not applicable hospitalised12m not applicable reason_hospi not applicable antibiotic12m not applicable any3_reasons not applicable BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548196 SAMN22246659 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-08-01 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id C152 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 16.2 ethnicity black host_occupation student host_disease No HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 21.257017 host_height 108.0975113 samp_size ['1', ''] study_complt_stat not applicable isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group comparison group visit Week 0 visit_date 2018-08-01T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 41725 FinalReads_ASVpipeline 16507 sampling_induced_expectorated expectorated barcode BSP0470 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 514051.29 templateDNA_16SqPCR_Cq 18.9685973 templateDNA_16SqPCR 0.364618624 well H03 plate_number P2 barcode_806R 806rcbc127 index_sequence GGTCAGCTTAAC DOB 2002-04-18T00:00:00 trial_arm not applicable adherence not applicable enrolmonth NA attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2015-02-02T00:00:00 datehiv 2015-01-28T00:00:00 ageyart 12.79 duryart 3.49 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z 0.63228977 weight 51.4 f24mrcscore 1 FEV1_baseline 2.78 FEVpcpred 108.0975113 FVC 3.21875 FVCZ 0.962785087 FVCpcpred 112.8722568 FEV1FVC 0.863689311 FEV1FVCZ -0.686517844 cd4 992 vload 0 zwauk -0.60776818 zhauk -1.2931216 zbmiuk 0.2554338 vllog NA endtreatdate ['NA', 'not applicable'] sp05time 12:28:00 all_3 not applicable visit012 not applicable visit1218 not applicable visit018 not applicable only2visits not applicable one_visit yes endfollowup not applicable dow not applicable dod not applicable lastvisit not applicable visittotno not applicable lastvisitdate not applicable treatstopreason not applicable cough_enrl not applicable cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m not applicable hospitalised12m not applicable reason_hospi not applicable antibiotic12m not applicable any3_reasons not applicable BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548197 SAMN22246668 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-08-28 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id C155 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 19.4 ethnicity black host_occupation student host_disease No HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 24.197702 host_height 104.7529005 samp_size ['1', ''] study_complt_stat not applicable isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group comparison group visit Week 0 visit_date 2018-08-28T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 44750 FinalReads_ASVpipeline 17545 sampling_induced_expectorated expectorated barcode BSP0509 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 2587488.96 templateDNA_16SqPCR_Cq 16.57484188 templateDNA_16SqPCR 1.835316221 well G04 plate_number P4 barcode_806R 806rcbc327 index_sequence ACATAACGCCGT DOB 1999-03-23T00:00:00 trial_arm not applicable adherence not applicable enrolmonth NA attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2016-01-15T00:00:00 datehiv 2015-11-15T00:00:00 ageyart 16.82 duryart 2.62 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z 0.36948654 weight 65.4 f24mrcscore 1 FEV1_baseline 3.08 FEVpcpred 104.7529005 FVC 3.494999886 FVCZ 0.38279158 FVCpcpred 105.1517117 FEV1FVC 0.881258948 FEV1FVCZ -0.161482389 cd4 530 vload 0 zwauk 0.81814802 zhauk 0.12749766 zbmiuk 0.84831274 vllog NA endtreatdate ['NA', 'not applicable'] sp05time 11:40:00 all_3 not applicable visit012 not applicable visit1218 not applicable visit018 not applicable only2visits not applicable one_visit yes endfollowup not applicable dow not applicable dod not applicable lastvisit not applicable visittotno not applicable lastvisitdate not applicable treatstopreason not applicable cough_enrl not applicable cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m not applicable hospitalised12m not applicable reason_hospi not applicable antibiotic12m not applicable any3_reasons not applicable BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548198 SAMN22246600 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2017-09-04 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1108 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 18.5 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 21.716696 host_height 72.26519746 samp_size ['2', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2017-08-30T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 36049 FinalReads_ASVpipeline 15149 sampling_induced_expectorated expectorated barcode BSP0158 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 350860.73 templateDNA_16SqPCR_Cq 19.45217924 templateDNA_16SqPCR 0.248866915 well E05 plate_number P3 barcode_806R 806rcbc237 index_sequence GCGTGTTAAACC DOB 1999-03-05T00:00:00 trial_arm Placebo adherence Not Adherent enrolmonth 2017-09 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2010-07-15T00:00:00 datehiv 2010-05-15T00:00:00 ageyart 11.36 duryart 7.14 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -2.1004202 weight 46.8 f24mrcscore 2 FEV1_baseline 1.67 FEVpcpred 72.26519746 FVC 2.123749971 FVCZ -1.299083956 FVCpcpred 82.92897724 FEV1FVC 0.786344899 FEV1FVCZ -1.727394847 cd4 720 vload 39 zwauk -1.5821037 zhauk -2.7829454 zbmiuk 0.13641615 vllog 1.5910646 endtreatdate ['2018-08-06T00:00:00', '2018-08-06T00:00:00'] sp05time 10:01:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-01-22T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-01-22T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548199 SAMN22246663 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-08-10 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1108 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 19.4 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 21.935305 host_height 77.61405029 samp_size ['2', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2018-08-10T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 35170 FinalReads_ASVpipeline 12528 sampling_induced_expectorated expectorated barcode BSP0486 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 1496164.88 templateDNA_16SqPCR_Cq 17.28479263 templateDNA_16SqPCR 1.061235708 well E07 plate_number P3 barcode_806R 806rcbc253 index_sequence ACCGGCTAGAGT DOB 1999-03-05T00:00:00 trial_arm Placebo adherence Not Adherent enrolmonth 2017-09 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2010-07-15T00:00:00 datehiv 2010-05-15T00:00:00 ageyart 11.36 duryart 7.14 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.702002249 weight 47.4 f24mrcscore 1 FEV1_baseline 1.799999952 FEVpcpred 77.61405029 FVC 2.098750114 FVCZ -1.417693338 FVCpcpred 81.33755756 FEV1FVC 0.857653296 FEV1FVCZ -0.706101001 cd4 660 vload 85 zwauk -1.5209541 zhauk -2.7536366 zbmiuk 0.12334207 vllog 1.9294189 endtreatdate ['NA', '2018-08-06T00:00:00'] sp05time 12:24:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-01-22T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-01-22T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548200 SAMN22246686 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-01-22 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1108 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 19.8 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 22.062626 host_height 76.20364724 samp_size ['1.5', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 72 visit_date 2019-01-22T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 33001 FinalReads_ASVpipeline 12285 sampling_induced_expectorated expectorated barcode BSP0600 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 1224396.14 templateDNA_16SqPCR_Cq 17.58437009 templateDNA_16SqPCR 0.868469056 well E08 plate_number P3 barcode_806R 806rcbc261 index_sequence CTGTAGGAGACC DOB 1999-03-05T00:00:00 trial_arm Placebo adherence Not Adherent enrolmonth 2017-09 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2010-07-15T00:00:00 datehiv 2010-05-15T00:00:00 ageyart 11.36 duryart 7.14 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.805879749 weight 48 f24mrcscore 2 FEV1_baseline 1.779999971 FEVpcpred 76.20364724 FVC 2.043750048 FVCZ -1.638804969 FVCpcpred 78.4601945 FEV1FVC 0.870947978 FEV1FVCZ -0.467396802 cd4 NA vload NA zwauk -1.4317257 zhauk -2.6730127 zbmiuk 0.12825572 vllog NA endtreatdate ['NA', '2018-08-06T00:00:00'] sp05time 11:00:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-01-22T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-01-22T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548201 SAMN22246676 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-12-07 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1093 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 13.3 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 15.924166 host_height 81.46396617 samp_size ['2', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 72 visit_date 2018-12-07T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 38800 FinalReads_ASVpipeline 13182 sampling_induced_expectorated expectorated barcode BSP0568 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 16132.19 templateDNA_16SqPCR_Cq 24.05450828 templateDNA_16SqPCR 0.011442628 well C10 plate_number P3 barcode_806R 806rcbc275 index_sequence TCGAGTTTGGTT DOB 2005-08-12T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2017-07 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2015-09-25T00:00:00 datehiv 2007-06-15T00:00:00 ageyart 10.12 duryart 1.79 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.390805446 weight 32.2 f24mrcscore 1 FEV1_baseline 1.610000014 FEVpcpred 81.46396617 FVC 1.768749952 FVCZ -1.693570999 FVCpcpred 79.10286735 FEV1FVC 0.910247382 FEV1FVCZ 0.467186523 cd4 NA vload NA zwauk -1.9728284 zhauk -1.8618885 zbmiuk -1.3119576 vllog NA endtreatdate ['NA', '2018-06-12T00:00:00'] sp05time 09:09:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2018-12-07T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2018-12-07T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548202 SAMN22246664 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-08-15 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1109 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 15.4 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 16.601021 host_height 74.46462861 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2018-08-15T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 66770 FinalReads_ASVpipeline 23821 sampling_induced_expectorated expectorated barcode BSP0487 sequencing_controls no sequencing_control_details NA WRrepeats AB WRrepeats_WP AB WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 193852.01 templateDNA_16SqPCR_Cq 20.47 templateDNA_16SqPCR 0.1375 well A02 plate_number P1 barcode_806R 806rcbc16 index_sequence TACACGATCTAC DOB 2003-03-03T00:00:00 trial_arm Azithromycin adherence Not Adherent enrolmonth 2017-09 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2011-09-28T00:00:00 datehiv 2008-03-15T00:00:00 ageyart 8.57 duryart 5.94 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.882074961 weight 35 f24mrcscore 1 FEV1_baseline 1.710000038 FEVpcpred 74.46462861 FVC 1.973749995 FVCZ -1.847638422 FVCpcpred 77.12945393 FEV1FVC 0.866371142 FEV1FVCZ -0.45024432 cd4 850 vload 1420 zwauk -3.1285384 zhauk -3.293108 zbmiuk -1.6262836 vllog 3.1522884 endtreatdate ['NA', '2018-08-13T00:00:00'] sp05time 09:55:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-01-28T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-01-28T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548203 SAMN22246691 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-01-28 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1109 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 15.9 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 17.006607 host_height 79.24797976 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 72 visit_date 2019-01-28T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 41231 FinalReads_ASVpipeline 15829 sampling_induced_expectorated expectorated barcode BSP0613 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 253227.7 templateDNA_16SqPCR_Cq 20.08226612 templateDNA_16SqPCR 0.179615415 well A03 plate_number P1 barcode_806R 806rcbc24 index_sequence GCGATATATCGC DOB 2003-03-03T00:00:00 trial_arm Azithromycin adherence Not Adherent enrolmonth 2017-09 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2011-09-28T00:00:00 datehiv 2008-03-15T00:00:00 ageyart 8.57 duryart 5.94 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.540741987 weight 37 f24mrcscore 1 FEV1_baseline 1.919999957 FEVpcpred 79.24797976 FVC 2.2368750569999998 FVCZ -1.3913822 FVCpcpred 82.73622667 FEV1FVC 0.858340277 FEV1FVCZ -0.558815128 cd4 NA vload 90700 zwauk -3.2010677 zhauk -3.3381703 zbmiuk -1.5138605 vllog 4.9576073 endtreatdate ['NA', '2018-08-13T00:00:00'] sp05time 08:55:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-01-28T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-01-28T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548204 SAMN22246601 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2017-09-04 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1109 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 14.5 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 16.526508 host_height 74.66765895 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2017-08-31T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 78491 FinalReads_ASVpipeline 23988 sampling_induced_expectorated expectorated barcode BSP0159 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats D EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 51952.34 templateDNA_16SqPCR_Cq 22.42 templateDNA_16SqPCR 0.03685 well A01 plate_number P1 barcode_806R 806rcbc8 index_sequence GAACCAAAGGAT DOB 2003-03-03T00:00:00 trial_arm Azithromycin adherence Not Adherent enrolmonth 2017-09 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2011-09-28T00:00:00 datehiv 2008-03-15T00:00:00 ageyart 8.57 duryart 5.94 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.8651574 weight 31.2 f24mrcscore 1 FEV1_baseline 1.45 FEVpcpred 74.66765895 FVC 1.733124971 FVCZ -1.583445676 FVCpcpred 80.41344745 FEV1FVC 0.83663906 FEV1FVCZ -0.944120165 cd4 938 vload 1360 zwauk -3.0478268 zhauk -3.4421406 zbmiuk -1.3414016 vllog 3.133539 endtreatdate ['2018-08-13T00:00:00', '2018-08-13T00:00:00'] sp05time 10:55:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-01-28T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-01-28T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548205 SAMN22246603 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2017-09-05 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1111 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 9.9 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 13.865216 host_height 85.02851249 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2017-08-31T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 33023 FinalReads_ASVpipeline 5802 sampling_induced_expectorated expectorated barcode BSP0162 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 611984.8 templateDNA_16SqPCR_Cq 18.62077854 templateDNA_16SqPCR 0.434083252 well G12 plate_number P3 barcode_806R 806rcbc295 index_sequence CACGTCGATGGA DOB 2007-10-08T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2017-09 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2009-06-15T00:00:00 datehiv 2008-02-15T00:00:00 ageyart 1.69 duryart 8.22 artdrug1stline no artdrug2ndline yes artreg ATV/LPV/PI fev1z -1.188036 weight 24.6 f24mrcscore 1 FEV1_baseline 1.31 FEVpcpred 85.02851249 FVC 1.612499952 FVCZ -0.665327014 FVCpcpred 91.63258387 FEV1FVC 0.812403089 FEV1FVCZ -1.066766757 cd4 748 vload 274 zwauk -1.6347154 zhauk -0.76963413 zbmiuk -1.8041947 vllog 2.4377506 endtreatdate ['2018-08-07T00:00:00', '2018-08-07T00:00:00'] sp05time 10:16:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-01-22T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-01-22T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548206 SAMN22246687 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-01-22 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1111 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 11.2 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 13.508391 host_height 81.85448256 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 72 visit_date 2019-01-22T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 38148 FinalReads_ASVpipeline 12975 sampling_induced_expectorated expectorated barcode BSP0601 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 34611.39 templateDNA_16SqPCR_Cq 23.02 templateDNA_16SqPCR 0.02455 well H02 plate_number P3 barcode_806R 806rcbc216 index_sequence CCTCTACCTACG DOB 2007-10-08T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2017-09 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2009-06-15T00:00:00 datehiv 2008-02-15T00:00:00 ageyart 1.69 duryart 8.22 artdrug1stline no artdrug2ndline yes artreg ATV/LPV/PI fev1z -1.43030431 weight 25.8 f24mrcscore 1 FEV1_baseline 1.409999967 FEVpcpred 81.85448256 FVC 1.879374981 FVCZ -0.393643005 FVCpcpred 95.11143991 FEV1FVC 0.750249408 FEV1FVCZ -1.908054587 cd4 NA vload NA zwauk -2.1798208 zhauk -0.96334976 zbmiuk -2.5553675 vllog NA endtreatdate ['NA', '2018-08-07T00:00:00'] sp05time 09:00:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-01-22T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-01-22T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548207 SAMN22246661 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-08-07 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1111 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 10.8 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 14.168982 host_height 82.01380566 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2018-08-07T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 25352 FinalReads_ASVpipeline 1473 sampling_induced_expectorated expectorated barcode BSP0477 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 312418.94 templateDNA_16SqPCR_Cq 19.76 templateDNA_16SqPCR 0.2216 well H01 plate_number P3 barcode_806R 806rcbc208 index_sequence TGCGGCATCGAA DOB 2007-10-08T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2017-09 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2009-06-15T00:00:00 datehiv 2008-02-15T00:00:00 ageyart 1.69 duryart 8.22 artdrug1stline no artdrug2ndline yes artreg ATV/LPV/PI fev1z -1.427813778 weight 26.4 f24mrcscore 1 FEV1_baseline 1.360000014 FEVpcpred 82.01380566 FVC 1.820624948 FVCZ -0.340733042 FVCpcpred 95.75546 FEV1FVC 0.746996253 FEV1FVCZ -1.95189124 cd4 534 vload 39 zwauk -1.7159653 zhauk -0.92424023 zbmiuk -1.792025 vllog 1.5910646 endtreatdate ['NA', '2018-08-07T00:00:00'] sp05time 08:50:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-01-22T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-01-22T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548208 SAMN22246604 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2017-09-06 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1113 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 18.1 ethnicity black host_occupation missing host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 21.381546 host_height 70.22571833 samp_size ['2', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2017-09-01T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 40072 FinalReads_ASVpipeline 11723 sampling_induced_expectorated expectorated barcode BSP0164 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 1839719.26 templateDNA_16SqPCR_Cq 17.07715806 templateDNA_16SqPCR 1.304920195 well E04 plate_number P4 barcode_806R 806rcbc325 index_sequence CGGCGATGTACA DOB 1999-07-11T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2017-09 attendschool no rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2007-09-15T00:00:00 datehiv 2007-06-01T00:00:00 ageyart 8.18 duryart 9.98 artdrug1stline no artdrug2ndline yes artreg ATV/LPV/PI fev1z -2.2511387 weight 54.6 f24mrcscore 1 FEV1_baseline 1.94 FEVpcpred 70.22571833 FVC 2.101875067 FVCZ -2.483360583 FVCpcpred 67.93027296 FEV1FVC 0.922985428 FEV1FVCZ 0.453271734 cd4 749 vload 39 zwauk -0.38590172 zhauk -0.62696224 zbmiuk 0.052758403 vllog 1.5910646 endtreatdate ['2018-08-08T00:00:00', '2018-08-08T00:00:00'] sp05time 10:02:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-01-24T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-01-24T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat yes acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548209 SAMN22246689 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-01-24 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1113 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 19.5 ethnicity black host_occupation missing host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 22.332195 host_height 68.61968566 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 72 visit_date 2019-01-24T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 56609 FinalReads_ASVpipeline 14109 sampling_induced_expectorated expectorated barcode BSP0608 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 13294.16 templateDNA_16SqPCR_Cq 24.33785205 templateDNA_16SqPCR 0.009429602 well E07 plate_number P4 barcode_806R 806rcbc349 index_sequence ATATTCCCAGGT DOB 1999-07-11T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2017-09 attendschool no rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2007-09-15T00:00:00 datehiv 2007-06-01T00:00:00 ageyart 8.18 duryart 9.98 artdrug1stline no artdrug2ndline yes artreg ATV/LPV/PI fev1z -2.365540428 weight 57.6 f24mrcscore 1 FEV1_baseline 1.919999957 FEVpcpred 68.61968566 FVC 2.176875114 FVCZ -2.383658193 FVCpcpred 69.02277379 FEV1FVC 0.881998211 FEV1FVCZ -0.17954553 cd4 NA vload NA zwauk -0.05389348 zhauk -0.50183564 zbmiuk 0.25258559 vllog NA endtreatdate ['NA', '2018-08-08T00:00:00'] sp05time 11:05:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-01-24T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-01-24T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat yes acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548210 SAMN22246662 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-08-08 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1113 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 19 ethnicity black host_occupation missing host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 21.715366 host_height 63.52522073 samp_size ['1.5', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2018-08-08T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 44575 FinalReads_ASVpipeline 15149 sampling_induced_expectorated expectorated barcode BSP0481 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 24393.94 templateDNA_16SqPCR_Cq 23.44388181 templateDNA_16SqPCR 0.017302718 well E05 plate_number P4 barcode_806R 806rcbc333 index_sequence AGGATTACTCCG DOB 1999-07-11T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2017-09 attendschool no rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2007-09-15T00:00:00 datehiv 2007-06-01T00:00:00 ageyart 8.18 duryart 9.98 artdrug1stline no artdrug2ndline yes artreg ATV/LPV/PI fev1z -2.737184538 weight 55.8 f24mrcscore 1 FEV1_baseline 1.769999981 FEVpcpred 63.52522073 FVC 1.938750029 FVCZ -2.963973533 FVCpcpred 61.86325241 FEV1FVC 0.912959358 FEV1FVCZ 0.3288692 cd4 764 vload 68 zwauk -0.26935565 zhauk -0.55136329 zbmiuk 0.077890322 vllog 1.8325089 endtreatdate ['NA', '2018-08-08T00:00:00'] sp05time 11:06:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-01-24T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-01-24T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat yes acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548211 SAMN22246665 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-08-23 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1123 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 18.9 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 20.331467 host_height 66.97903333 samp_size ['2', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2018-08-23T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 43362 FinalReads_ASVpipeline 15359 sampling_induced_expectorated expectorated barcode BSP0499 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 49130.08 templateDNA_16SqPCR_Cq 22.49174286 templateDNA_16SqPCR 0.034848163 well A07 plate_number P2 barcode_806R 806rcbc152 index_sequence ATGATGACCCGT DOB 1999-09-18T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2017-09 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2008-10-15T00:00:00 datehiv 2008-08-15T00:00:00 ageyart 9.08 duryart 8.93 artdrug1stline no artdrug2ndline yes artreg ATV/LPV/PI fev1z -2.52462167 weight 58 f24mrcscore 1 FEV1_baseline 2.349999905 FEVpcpred 66.97903333 FVC 3.296250105 FVCZ -1.48545784 FVCpcpred 81.52460725 FEV1FVC 0.71293131 FEV1FVCZ -2.201770171 cd4 211 vload 39 zwauk -1.3003392 zhauk -1.2009698 zbmiuk -0.50482094 vllog 1.5910646 endtreatdate ['NA', '2018-08-23T00:00:00'] sp05time 09:23:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-02-07T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-02-07T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat yes acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548212 SAMN22246605 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2017-09-21 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1123 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 18 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 19.614325 host_height 65.37092654 samp_size ['2', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2017-09-18T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 39643 FinalReads_ASVpipeline 16041 sampling_induced_expectorated expectorated barcode BSP0189 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 126734.21 templateDNA_16SqPCR_Cq 21.06975977 templateDNA_16SqPCR 0.08989308 well A05 plate_number P2 barcode_806R 806rcbc136 index_sequence TAACACCACATC DOB 1999-09-18T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2017-09 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2008-10-15T00:00:00 datehiv 2008-08-15T00:00:00 ageyart 9.08 duryart 8.93 artdrug1stline no artdrug2ndline yes artreg ATV/LPV/PI fev1z -2.6156902 weight 53.4 f24mrcscore 1 FEV1_baseline 2.15 FEVpcpred 65.37092654 FVC 3.149374962 FVCZ -1.306881026 FVCpcpred 83.74544049 FEV1FVC 0.682675173 FEV1FVCZ -2.598642832 cd4 216 vload 50 zwauk -1.7443007 zhauk -1.7257934 zbmiuk -0.64316618 vllog 1.69897 endtreatdate ['2018-08-23T00:00:00', '2018-08-23T00:00:00'] sp05time 08:41:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-02-07T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-02-07T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat yes acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548213 SAMN22246592 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2017-08-03 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1101 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 11.9 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 15.060232 host_height 79.04350359 samp_size ['2', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2017-07-26T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 45993 FinalReads_ASVpipeline 8271 sampling_induced_expectorated expectorated barcode BSP0131 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 82461.12 templateDNA_16SqPCR_Cq 21.73 templateDNA_16SqPCR 0.05849 well D02 plate_number P1 barcode_806R 806rcbc19 index_sequence CAGGCGTATTGG DOB 2005-09-05T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2017-08 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2012-01-15T00:00:00 datehiv 2011-06-01T00:00:00 ageyart 6.36 duryart 5.55 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.6269472 weight 26.6 f24mrcscore 2 FEV1_baseline 1.27 FEVpcpred 79.04350359 FVC 1.443699956 FVCZ -1.681363533 FVCpcpred 79.25475373 FEV1FVC 0.879684159 FEV1FVCZ -0.039513743 cd4 779 vload 39 zwauk -2.3220158 zhauk -2.0972326 zbmiuk -1.4261898 vllog 1.5910646 endtreatdate ['2018-07-05T00:00:00', '2018-07-05T00:00:00'] sp05time 11:18:00 all_3 no visit012 no visit1218 no visit018 yes only2visits yes one_visit no endfollowup 2018-12-13T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2018-12-13T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548214 SAMN22246694 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-02-07 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1123 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 19.3 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 19.630877 host_height 71.78407274 samp_size ['2', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 72 visit_date 2019-02-07T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 42324 FinalReads_ASVpipeline 18610 sampling_induced_expectorated expectorated barcode BSP0624 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 873382.73 templateDNA_16SqPCR_Cq 18.17321216 templateDNA_16SqPCR 0.619493847 well A08 plate_number P2 barcode_806R 806rcbc160 index_sequence GTCCGAAACACT DOB 1999-09-18T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2017-09 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2008-10-15T00:00:00 datehiv 2008-08-15T00:00:00 ageyart 9.08 duryart 8.93 artdrug1stline no artdrug2ndline yes artreg ATV/LPV/PI fev1z -2.175090443 weight 56.8 f24mrcscore 1 FEV1_baseline 2.569999933 FEVpcpred 71.78407274 FVC 3.555624962 FVCZ -1.129344661 FVCpcpred 85.93103047 FEV1FVC 0.722798372 FEV1FVCZ -2.060785082 cd4 NA vload NA zwauk -1.5645392 zhauk -1.0323304 zbmiuk -0.93837506 vllog NA endtreatdate ['NA', '2018-08-23T00:00:00'] sp05time 10:13:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-02-07T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-02-07T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat yes acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548215 SAMN22246606 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2017-09-22 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1125 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 19.5 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 17.34506 host_height 67.2314541 samp_size ['2', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2017-09-19T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 39533 FinalReads_ASVpipeline 13632 sampling_induced_expectorated expectorated barcode BSP0191 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 369376.19 templateDNA_16SqPCR_Cq 19.52 templateDNA_16SqPCR 0.262 well F01 plate_number P2 barcode_806R 806rcbc109 index_sequence TGTAATTGTCGC DOB 1998-03-13T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2017-09 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2007-03-15T00:00:00 datehiv 2007-03-01T00:00:00 ageyart 9 duryart 10.52 artdrug1stline no artdrug2ndline yes artreg ATV/LPV/PI fev1z -2.5185921 weight 48.2 f24mrcscore 1 FEV1_baseline 2.3 FEVpcpred 67.2314541 FVC 2.670000076 FVCZ -2.600932574 FVCpcpred 67.77688983 FEV1FVC 0.861423178 FEV1FVCZ -0.200640502 cd4 339 vload 56 zwauk -3.1001241 zhauk -1.5198483 zbmiuk -2.3219488 vllog 1.748188 endtreatdate ['2018-08-24T00:00:00', '2018-08-24T00:00:00'] sp05time 09:05:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-02-08T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-02-08T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat yes acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548216 SAMN22246666 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-08-24 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1125 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 20.4 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 16.87612 host_height 73.91650502 samp_size ['2', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2018-08-24T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 40524 FinalReads_ASVpipeline 15740 sampling_induced_expectorated expectorated barcode BSP0502 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 227406.03 templateDNA_16SqPCR_Cq 20.23 templateDNA_16SqPCR 0.1613 well F02 plate_number P2 barcode_806R 806rcbc117 index_sequence CGTCCGAAATAC DOB 1998-03-13T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2017-09 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2007-03-15T00:00:00 datehiv 2007-03-01T00:00:00 ageyart 9 duryart 10.52 artdrug1stline no artdrug2ndline yes artreg ATV/LPV/PI fev1z -2.025202647 weight 48.6 f24mrcscore 1 FEV1_baseline 2.650000095 FEVpcpred 73.91650502 FVC 3.106250048 FVCZ -2.030733836 FVCpcpred 74.76178194 FEV1FVC 0.85311873 FEV1FVCZ -0.247587568 cd4 563 vload 39 zwauk -3.2045903 zhauk -1.1121308 zbmiuk -2.8725123 vllog 1.5910646 endtreatdate ['NA', '2018-08-24T00:00:00'] sp05time 10:00:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-02-08T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-02-08T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat yes acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548217 SAMN22246695 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-02-08 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1125 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 20.9 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage NA host_hiv_stat yes host_body_mass_index 16.335781 host_height 78.07677141 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 72 visit_date 2019-02-08T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 39006 FinalReads_ASVpipeline 5700 sampling_induced_expectorated expectorated barcode BSP0626 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 110339.98 templateDNA_16SqPCR_Cq 21.2776291 templateDNA_16SqPCR 0.078264588 well F03 plate_number P2 barcode_806R 806rcbc125 index_sequence ATGTCGAGAGAA DOB 1998-03-13T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2017-09 attendschool yes rs15antibty NA rs14antib no dateart 2007-03-15T00:00:00 datehiv 2007-03-01T00:00:00 ageyart 9 duryart 10.52 artdrug1stline no artdrug2ndline yes artreg ATV/LPV/PI fev1z -1.709072692 weight 47.6 f24mrcscore 1 FEV1_baseline 2.839999914 FEVpcpred 78.07677141 FVC 3.236249924 FVCZ -1.882302242 FVCpcpred 76.57987976 FEV1FVC 0.877558897 FEV1FVCZ 0.174151988 cd4 NA vload NA zwauk -3.4975839 zhauk -0.98704022 zbmiuk -3.398309 vllog NA endtreatdate ['NA', '2018-08-24T00:00:00'] sp05time 08:32:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-02-08T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-02-08T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat yes acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548218 SAMN22246667 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-08-28 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1128 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 16.1 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage NA host_hiv_stat yes host_body_mass_index 15.099893 host_height 79.30948409 samp_size ['NA', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2018-08-28T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 30297 FinalReads_ASVpipeline 7179 sampling_induced_expectorated expectorated barcode BSP0507 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 7786891.12 templateDNA_16SqPCR_Cq 15.11225618 templateDNA_16SqPCR 5.523272867 well G11 plate_number P1 barcode_806R 806rcbc94 index_sequence GAATAGAGCCAA DOB 2002-07-09T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2017-09 attendschool yes rs15antibty NA rs14antib NA dateart 2009-06-15T00:00:00 datehiv 2009-05-01T00:00:00 ageyart 6.93 duryart 8.28 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.578572083 weight 37.6 f24mrcscore 1 FEV1_baseline 2.099999905 FEVpcpred 79.30948409 FVC 2.438750029 FVCZ -1.313915047 FVCpcpred 82.91287755 FEV1FVC 0.861096824 FEV1FVCZ -0.709135785 cd4 155 vload 39 zwauk -3.0108237 zhauk -0.90259802 zbmiuk -2.9072645 vllog 1.5910646 endtreatdate ['NA', '2018-08-28T00:00:00'] sp05time NA all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-02-12T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-02-12T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548219 SAMN22246696 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-02-12 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1128 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 16.5 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 14.46424 host_height NA samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 72 visit_date 2019-02-12T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 29964 FinalReads_ASVpipeline 10345 sampling_induced_expectorated expectorated barcode BSP0629 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 2665710 templateDNA_16SqPCR_Cq 16.66737907 templateDNA_16SqPCR 1.890798717 well G12 plate_number P1 barcode_806R 806rcbc102 index_sequence AATGTCCGTGAC DOB 2002-07-09T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2017-09 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2009-06-15T00:00:00 datehiv 2009-05-01T00:00:00 ageyart 6.93 duryart 8.28 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z NA weight 36.2 f24mrcscore 1 FEV1_baseline NA FEVpcpred NA FVC NA FVCZ NA FVCpcpred NA FEV1FVC NA FEV1FVCZ NA cd4 NA vload NA zwauk -3.4801142 zhauk -0.86664289 zbmiuk -3.5270736 vllog NA endtreatdate ['NA', '2018-08-28T00:00:00'] sp05time 09:15:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-02-12T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-02-12T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548220 SAMN22246609 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2017-10-24 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1143 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 11.6 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 15.949891 host_height 83.1424051 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2017-10-20T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 35227 FinalReads_ASVpipeline 5182 sampling_induced_expectorated expectorated barcode BSP0221 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 866069.8 templateDNA_16SqPCR_Cq 18.29835824 templateDNA_16SqPCR 0.614306759 well A08 plate_number P1 barcode_806R 806rcbc64 index_sequence GAGTGGTAGAGA DOB 2006-03-12T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2017-10 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2011-06-28T00:00:00 datehiv 2011-06-01T00:00:00 ageyart 5.3 duryart 6.32 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.290925 weight 31.8 f24mrcscore 1 FEV1_baseline 1.51 FEVpcpred 83.1424051 FVC 1.61937499 FVCZ -1.59997156 FVCpcpred 79.83972956 FEV1FVC 0.93245851 FEV1FVCZ 0.686640498 cd4 532 vload 187 zwauk -1.0652575 zhauk -0.90337145 zbmiuk -0.95206982 vllog 2.2718415 endtreatdate ['2018-09-25T00:00:00', '2018-09-25T00:00:00'] sp05time 09:20:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-03-12T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-03-12T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m yes hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 1 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548221 SAMN22246671 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-09-25 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1143 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 12.5 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 16.756002 host_height 87.40408549 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2018-09-25T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 38687 FinalReads_ASVpipeline 14726 sampling_induced_expectorated expectorated barcode BSP0533 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 646125.78 templateDNA_16SqPCR_Cq 18.72337561 templateDNA_16SqPCR 0.45829959 well A09 plate_number P1 barcode_806R 806rcbc72 index_sequence GAACTAGTCACC DOB 2006-03-12T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2017-10 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2011-06-28T00:00:00 datehiv 2011-06-01T00:00:00 ageyart 5.3 duryart 6.32 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -0.96768912 weight 37.2 f24mrcscore 1 FEV1_baseline 1.850000024 FEVpcpred 87.40408549 FVC 2.070625067 FVCZ -0.966079331 FVCpcpred 87.66198281 FEV1FVC 0.893450028 FEV1FVCZ -0.097850977 cd4 510 vload 237 zwauk -0.81326836 zhauk -0.54095548 zbmiuk -0.80415398 vllog 2.3747482 endtreatdate ['NA', '2018-09-25T00:00:00'] sp05time 08:20:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-03-12T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-03-12T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m yes hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 1 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548222 SAMN22246607 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2017-09-26 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1128 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 15.2 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 15.313274 host_height 84.52029248 samp_size ['2', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2017-09-22T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 38533 FinalReads_ASVpipeline 13753 sampling_induced_expectorated expectorated barcode BSP0195 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 932369.53 templateDNA_16SqPCR_Cq 18.19134825 templateDNA_16SqPCR 0.661 well G10 plate_number P1 barcode_806R 806rcbc86 index_sequence TCCCAGAACAAC DOB 2002-07-09T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2017-09 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2009-06-15T00:00:00 datehiv 2009-05-01T00:00:00 ageyart 6.93 duryart 8.28 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.1862735 weight 35.8 f24mrcscore 1 FEV1_baseline 2.06 FEVpcpred 84.52029248 FVC 2.267499924 FVCZ -1.220810385 FVCpcpred 84.18349023 FEV1FVC 0.908489531 FEV1FVCZ 0.029685108 cd4 694 vload 126 zwauk -3.0019886 zhauk -1.5535731 zbmiuk -2.5065842 vllog 2.1003706 endtreatdate ['2018-08-28T00:00:00', '2018-08-28T00:00:00'] sp05time 08:58:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-02-12T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-02-12T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548223 SAMN22246610 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2017-10-25 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1144 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 16.1 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage NA host_hiv_stat yes host_body_mass_index 26.015799 host_height 68.69772741 samp_size ['2', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2017-10-23T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 43609 FinalReads_ASVpipeline 10040 sampling_induced_expectorated expectorated barcode BSP0222 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 23464.91 templateDNA_16SqPCR_Cq 23.60062129 templateDNA_16SqPCR 0.016643758 well C11 plate_number P2 barcode_806R 806rcbc186 index_sequence AAGATGGATCAG DOB 2001-08-31T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2017-10 attendschool yes rs15antibty NA rs14antib no dateart 2013-03-15T00:00:00 datehiv 2008-01-25T00:00:00 ageyart 11.54 duryart 4.61 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -2.3647611 weight 63.8 f24mrcscore 1 FEV1_baseline 1.79 FEVpcpred 68.69772741 FVC 2.182499886 FVCZ -1.899600042 FVCpcpred 75.48442921 FEV1FVC 0.820160392 FEV1FVCZ -1.316638447 cd4 808 vload 380 zwauk 0.90200591 zhauk -1.1008632 zbmiuk 1.6206475 vllog 2.5797837 endtreatdate ['2018-09-26T00:00:00', '2018-09-26T00:00:00'] sp05time 10:20:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-03-13T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-03-13T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole no adm no nadm NA tbtreat yes acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548224 SAMN22246649 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-07-05 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1101 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 12.8 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index not applicable host_height not applicable samp_size ['not applicable', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date not applicable run_processing_batch R1 sample_type SP RawReads_ASVpipeline 8 FinalReads_ASVpipeline 1 sampling_induced_expectorated expectorated barcode BSP0444 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 93361.45 templateDNA_16SqPCR_Cq 21.52980315 templateDNA_16SqPCR 0.0662 well D03 plate_number P1 barcode_806R 806rcbc27 index_sequence ACGCGCAGATAC DOB 2005-09-05T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2017-08 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2012-01-15T00:00:00 datehiv 2011-06-01T00:00:00 ageyart 6.36 duryart 5.55 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z not applicable weight not applicable f24mrcscore not applicable FEV1_baseline not applicable FEVpcpred not applicable FVC not applicable FVCZ not applicable FVCpcpred not applicable FEV1FVC not applicable FEV1FVCZ not applicable cd4 not applicable vload not applicable zwauk not applicable zhauk not applicable zbmiuk not applicable vllog not applicable endtreatdate ['not applicable', '2018-07-05T00:00:00'] sp05time not applicable all_3 not applicable visit012 not applicable visit1218 not applicable visit018 not applicable only2visits not applicable one_visit not applicable endfollowup 2018-12-13T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2018-12-13T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m not applicable hospitalised12m not applicable reason_hospi not applicable antibiotic12m not applicable any3_reasons not applicable BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548225 SAMN22246703 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-03-12 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1143 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 13 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 16.774647 host_height 92.028705 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 72 visit_date 2019-03-12T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 34963 FinalReads_ASVpipeline 9562 sampling_induced_expectorated expectorated barcode BSP0658 sequencing_controls no sequencing_control_details NA WRrepeats AR WRrepeats_WP AR WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 498649.55 templateDNA_16SqPCR_Cq 19.09924185 templateDNA_16SqPCR 0.353694109 well A10 plate_number P1 barcode_806R 806rcbc80 index_sequence TTGCGCATACTA DOB 2006-03-12T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2017-10 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2011-06-28T00:00:00 datehiv 2011-06-01T00:00:00 ageyart 5.3 duryart 6.32 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -0.614654396 weight 38.4 f24mrcscore 1 FEV1_baseline 2.049999952 FEVpcpred 92.028705 FVC 2.269999981 FVCZ -0.663256284 FVCpcpred 91.47173762 FEV1FVC 0.903083687 FEV1FVCZ 0.054784347 cd4 NA vload NA zwauk -0.97253025 zhauk -0.57390517 zbmiuk -0.93659723 vllog NA endtreatdate ['NA', '2018-09-25T00:00:00'] sp05time 09:30:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-03-12T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-03-12T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m yes hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 1 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548226 SAMN22246672 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-09-26 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1144 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 17 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage NA host_hiv_stat yes host_body_mass_index 27.251196 host_height 74.34513802 samp_size ['2', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2018-09-26T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 39141 FinalReads_ASVpipeline 13389 sampling_induced_expectorated expectorated barcode BSP0534 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 385567.1 templateDNA_16SqPCR_Cq 19.40017661 templateDNA_16SqPCR 0.273484279 well C12 plate_number P2 barcode_806R 806rcbc194 index_sequence TACGATGACCAC DOB 2001-08-31T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2017-10 attendschool yes rs15antibty NA rs14antib no dateart 2013-03-15T00:00:00 datehiv 2008-01-25T00:00:00 ageyart 11.54 duryart 4.61 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.948302452 weight 67.6 f24mrcscore 1 FEV1_baseline 1.980000019 FEVpcpred 74.34513802 FVC 2.4375 FVCZ -1.362840407 FVCpcpred 82.21017307 FEV1FVC 0.8123077 FEV1FVCZ -1.38600271 cd4 844 vload 780 zwauk 1.1546348 zhauk -0.99308866 zbmiuk 1.7966888 vllog 2.8920946 endtreatdate ['NA', '2018-09-26T00:00:00'] sp05time 09:34:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-03-13T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-03-13T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole no adm no nadm NA tbtreat yes acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548227 SAMN22246705 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-03-13 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1144 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 17.5 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage NA host_hiv_stat yes host_body_mass_index 26.737019 host_height 67.76747381 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 72 visit_date 2019-03-13T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 28660 FinalReads_ASVpipeline 3721 sampling_induced_expectorated expectorated barcode BSP0660 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 1701668.16 templateDNA_16SqPCR_Cq 17.26 templateDNA_16SqPCR 1.207 well D01 plate_number P2 barcode_806R 806rcbc107 index_sequence ACAAGGAGGTGA DOB 2001-08-31T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2017-10 attendschool yes rs15antibty NA rs14antib no dateart 2013-03-15T00:00:00 datehiv 2008-01-25T00:00:00 ageyart 11.54 duryart 4.61 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -2.432128312 weight 67 f24mrcscore 1 FEV1_baseline 1.830000043 FEVpcpred 67.76747381 FVC 2.27125001 FVCZ -1.896283648 FVCpcpred 75.37209156 FEV1FVC 0.805723736 FEV1FVCZ -1.4479041 cd4 NA vload NA zwauk 1.0580992 zhauk -0.86447811 zbmiuk 1.6460565 vllog NA endtreatdate ['NA', '2018-09-26T00:00:00'] sp05time 08:20:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-03-13T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-03-13T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole no adm no nadm NA tbtreat yes acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548228 SAMN22246611 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2017-10-26 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1145 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 17.4 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 17.972408 host_height 84.10724168 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2017-10-24T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 49447 FinalReads_ASVpipeline 17573 sampling_induced_expectorated expectorated barcode BSP0223 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 39870.05 templateDNA_16SqPCR_Cq 22.70229905 templateDNA_16SqPCR 0.028279982 well A11 plate_number P3 barcode_806R 806rcbc281 index_sequence AAGGTGTAAGGT DOB 2000-05-26T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2017-10 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2004-04-02T00:00:00 datehiv 2001-06-15T00:00:00 ageyart 3.85 duryart 13.57 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.2084079 weight 47.4 f24mrcscore 1 FEV1_baseline 2.64 FEVpcpred 84.10724168 FVC 2.93187499 FVCZ -1.441088473 FVCpcpred 82.0932535 FEV1FVC 0.900447704 FEV1FVCZ 0.2973591 cd4 715 vload 8680 zwauk -2.4814067 zhauk -1.9965996 zbmiuk -1.3750783 vllog 3.9385197 endtreatdate ['2018-09-27T00:00:00', '2018-09-27T00:00:00'] sp05time 10:17:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-03-14T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-03-14T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m yes hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 1 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548229 SAMN22246673 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-09-27 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1145 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 18.3 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 17.259306 host_height 82.46259088 samp_size ['1.5', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2018-09-27T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 36986 FinalReads_ASVpipeline 15289 sampling_induced_expectorated expectorated barcode BSP0535 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 253592.07 templateDNA_16SqPCR_Cq 19.93737748 templateDNA_16SqPCR 0.179873868 well A12 plate_number P3 barcode_806R 806rcbc289 index_sequence GAGAGAATGATC DOB 2000-05-26T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2017-10 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2004-04-02T00:00:00 datehiv 2001-06-15T00:00:00 ageyart 3.85 duryart 13.57 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.348790135 weight 45.8 f24mrcscore 1 FEV1_baseline 2.650000095 FEVpcpred 82.46259088 FVC 3.045624971 FVCZ -1.367361143 FVCpcpred 82.99289361 FEV1FVC 0.870100594 FEV1FVCZ -0.159749624 cd4 454 vload 1530 zwauk -3.2230458 zhauk -2.0513976 zbmiuk -2.0784819 vllog 3.1846914 endtreatdate ['NA', '2018-09-27T00:00:00'] sp05time 10:20:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-03-14T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-03-14T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m yes hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 1 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548230 SAMN22246706 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-03-14 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1145 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 18.7 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 16.92108 host_height 81.27426991 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 72 visit_date 2019-03-14T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 24088 FinalReads_ASVpipeline 7465 sampling_induced_expectorated expectorated barcode BSP0661 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 532070.89 templateDNA_16SqPCR_Cq 18.98 templateDNA_16SqPCR 0.3774 well B01 plate_number P3 barcode_806R 806rcbc202 index_sequence CTTGCTGAAGAC DOB 2000-05-26T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2017-10 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2004-04-02T00:00:00 datehiv 2001-06-15T00:00:00 ageyart 3.85 duryart 13.57 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.44665 weight 45.4 f24mrcscore 1 FEV1_baseline 2.660000086 FEVpcpred 81.27426991 FVC 2.960000038 FVCZ -1.691137205 FVCpcpred 78.98439856 FEV1FVC 0.898648666 FEV1FVCZ 0.32398781 cd4 NA vload 794 zwauk -3.4793744 zhauk -1.9319339 zbmiuk -2.4359405 vllog 2.8998206 endtreatdate ['NA', '2018-09-27T00:00:00'] sp05time 08:15:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-03-14T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-03-14T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m yes hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 1 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548231 SAMN22246674 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-10-09 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1150 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 14.2 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage NA host_hiv_stat yes host_body_mass_index 16.865156 host_height 71.69710331 samp_size ['NA', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2018-10-09T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 44019 FinalReads_ASVpipeline 18136 sampling_induced_expectorated expectorated barcode BSP0542 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats P EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 11748.14 templateDNA_16SqPCR_Cq 24.61 templateDNA_16SqPCR 0.008333 well H01 plate_number P2 barcode_806R 806rcbc111 index_sequence AGCTTGACAGCT DOB 2004-07-23T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2017-11 attendschool yes rs15antibty NA rs14antib NA dateart 2009-08-15T00:00:00 datehiv 2008-06-15T00:00:00 ageyart 5.06 duryart 8.23 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -2.083555846 weight 38.2 f24mrcscore 1 FEV1_baseline 1.679999948 FEVpcpred 71.69710331 FVC 1.973124981 FVCZ -2.079357784 FVCpcpred 74.34097695 FEV1FVC 0.851441223 FEV1FVCZ -0.507844505 cd4 845 vload 202 zwauk -1.5871404 zhauk -1.6117349 zbmiuk -1.0241781 vllog 2.3053513 endtreatdate ['NA', '2018-10-09T00:00:00'] sp05time NA all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-03-26T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-03-26T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548232 SAMN22246612 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2017-11-07 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1150 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 13.2 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 16.538965 host_height 58.3726739 samp_size ['2', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2017-10-31T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 42940 FinalReads_ASVpipeline 9529 sampling_induced_expectorated expectorated barcode BSP0234 sequencing_controls no sequencing_control_details NA WRrepeats J WRrepeats_WP J WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 66964.13 templateDNA_16SqPCR_Cq 22.02703393 templateDNA_16SqPCR 0.047497926 well G12 plate_number P2 barcode_806R 806rcbc198 index_sequence GGTAACAGCTCG DOB 2004-07-23T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2017-11 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2009-08-15T00:00:00 datehiv 2008-06-15T00:00:00 ageyart 5.06 duryart 8.23 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -3.0783138 weight 34.2 f24mrcscore 1 FEV1_baseline 1.18 FEVpcpred 58.3726739 FVC 1.363124967 FVCZ -3.308882237 FVCpcpred 59.43929225 FEV1FVC 0.865657938 FEV1FVCZ -0.268512453 cd4 477 vload 123 zwauk -1.5678838 zhauk -1.6396701 zbmiuk -0.90464282 vllog 2.089905 endtreatdate ['2018-10-09T00:00:00', '2018-10-09T00:00:00'] sp05time 08:40:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-03-26T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-03-26T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548233 SAMN22246707 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-03-26 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1150 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 14.6 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 17.400715 host_height 80.63855836 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 72 visit_date 2019-03-26T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 36955 FinalReads_ASVpipeline 5137 sampling_induced_expectorated expectorated barcode BSP0665 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 733535.99 templateDNA_16SqPCR_Cq 18.5 templateDNA_16SqPCR 0.5203 well H02 plate_number P2 barcode_806R 806rcbc119 index_sequence GACTCTTGGCAA DOB 2004-07-23T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2017-11 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2009-08-15T00:00:00 datehiv 2008-06-15T00:00:00 ageyart 5.06 duryart 8.23 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.430531219 weight 41 f24mrcscore 1 FEV1_baseline 2.019999981 FEVpcpred 80.63855836 FVC 2.333125114 FVCZ -1.432996289 FVCpcpred 82.25884178 FEV1FVC 0.865791538 FEV1FVCZ -0.28093236 cd4 NA vload NA zwauk -1.5049331 zhauk -1.6355015 zbmiuk -0.86350721 vllog NA endtreatdate ['NA', '2018-10-09T00:00:00'] sp05time 09:45:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-03-26T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-03-26T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548234 SAMN22246677 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-12-13 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1101 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 13.2 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 14.918216 host_height 75.47482668 samp_size ['2', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 72 visit_date 2018-12-13T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 27293 FinalReads_ASVpipeline 7213 sampling_induced_expectorated expectorated barcode BSP0571 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 609763.12 templateDNA_16SqPCR_Cq 18.8074062 templateDNA_16SqPCR 0.433 well D04 plate_number P1 barcode_806R 806rcbc35 index_sequence TTAGGGCTCGTA DOB 2005-09-05T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2017-08 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2012-01-15T00:00:00 datehiv 2011-06-01T00:00:00 ageyart 6.36 duryart 5.55 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.835089382 weight 28 f24mrcscore 1 FEV1_baseline 1.370000005 FEVpcpred 75.47482668 FVC 1.595000029 FVCZ -1.76866135 FVCpcpred 78.18405796 FEV1FVC 0.858934157 FEV1FVCZ -0.486424079 cd4 NA vload NA zwauk -2.8759277 zhauk -2.4699683 zbmiuk -2.041997 vllog NA endtreatdate ['NA', '2018-07-05T00:00:00'] sp05time 08:08:00 all_3 no visit012 no visit1218 no visit018 yes only2visits yes one_visit no endfollowup 2018-12-13T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2018-12-13T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548235 SAMN22246675 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-10-16 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1151 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 15.7 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage NA host_hiv_stat yes host_body_mass_index 16.464714 host_height 79.93923109 samp_size ['2', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2018-10-16T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 39916 FinalReads_ASVpipeline 15424 sampling_induced_expectorated expectorated barcode BSP0545 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 175233.27 templateDNA_16SqPCR_Cq 20.48974695 templateDNA_16SqPCR 0.124293655 well D11 plate_number P3 barcode_806R 806rcbc284 index_sequence CGCACATGTTAT DOB 2003-01-04T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2017-11 attendschool yes rs15antibty NA rs14antib no dateart 2009-06-15T00:00:00 datehiv 2005-05-15T00:00:00 ageyart 6.44 duryart 8.4 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.488224114 weight 39.2 f24mrcscore 1 FEV1_baseline 2.130000114 FEVpcpred 79.93923109 FVC 2.484999895 FVCZ -1.384918328 FVCpcpred 82.8190885 FEV1FVC 0.857142939 FEV1FVCZ -0.479147026 cd4 790 vload 66 zwauk -2.6754255 zhauk -2.368901 zbmiuk -1.834451 vllog 1.819544 endtreatdate ['NA', '2018-10-16T00:00:00'] sp05time 09:09:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-03-28T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-03-28T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole no adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548236 SAMN22246613 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2017-11-09 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1151 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 14.8 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 15.460143 host_height 71.46042469 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2017-11-06T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 16991 FinalReads_ASVpipeline 5092 sampling_induced_expectorated expectorated barcode BSP0235 sequencing_controls no sequencing_control_details NA WRrepeats K WRrepeats_WP K WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 260181.83 templateDNA_16SqPCR_Cq 19.89903872 templateDNA_16SqPCR 0.184548006 well D10 plate_number P3 barcode_806R 806rcbc276 index_sequence TTACGAGACGGC DOB 2003-01-04T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2017-11 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2009-06-15T00:00:00 datehiv 2005-05-15T00:00:00 ageyart 6.44 duryart 8.4 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -2.0949869 weight 33 f24mrcscore 1 FEV1_baseline 1.628749967 FEVpcpred 71.46042469 FVC 1.899374962 FVCZ -2.07528536 FVCpcpred 74.3609581 FEV1FVC 0.85751892 FEV1FVCZ -0.525636104 cd4 788 vload 58 zwauk -2.9656744 zhauk -2.6817555 zbmiuk -2.2343745 vllog 1.763428 endtreatdate ['2018-10-16T00:00:00', '2018-10-16T00:00:00'] sp05time 09:15:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-03-28T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-03-28T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole no adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548237 SAMN22246709 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-03-28 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1151 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 16.2 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage NA host_hiv_stat yes host_body_mass_index 16.604893 host_height 77.84028389 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 72 visit_date 2019-03-28T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 29211 FinalReads_ASVpipeline 11760 sampling_induced_expectorated expectorated barcode BSP0667 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 315931.74 templateDNA_16SqPCR_Cq 19.60889415 templateDNA_16SqPCR 0.224091641 well D12 plate_number P3 barcode_806R 806rcbc292 index_sequence AGGGACGATAAT DOB 2003-01-04T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2017-11 attendschool yes rs15antibty NA rs14antib yes dateart 2009-06-15T00:00:00 datehiv 2005-05-15T00:00:00 ageyart 6.44 duryart 8.4 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.649593723 weight 41.4 f24mrcscore 1 FEV1_baseline 2.220000029 FEVpcpred 77.84028389 FVC 2.558749914 FVCZ -1.662002387 FVCpcpred 79.39026475 FEV1FVC 0.867611179 FEV1FVCZ -0.282982271 cd4 NA vload NA zwauk -2.6944966 zhauk -2.1616969 zbmiuk -1.8892347 vllog NA endtreatdate ['NA', '2018-10-16T00:00:00'] sp05time 10:10:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-03-28T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-03-28T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole no adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548238 SAMN22246614 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-01-15 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1157 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 10.7 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 14.056265 host_height 70.5701833 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2018-01-09T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 31284 FinalReads_ASVpipeline 6052 sampling_induced_expectorated expectorated barcode BSP0268 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 794890.79 templateDNA_16SqPCR_Cq 18.31452074 templateDNA_16SqPCR 0.563819204 well A09 plate_number P2 barcode_806R 806rcbc168 index_sequence CGACTGTCTTAA DOB 2007-05-03T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2018-01 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2011-02-20T00:00:00 datehiv 2011-02-01T00:00:00 ageyart 3.8 duryart 6.9 artdrug1stline no artdrug2ndline yes artreg ATV/LPV/PI fev1z -2.3253446 weight 22.6 f24mrcscore 1 FEV1_baseline 0.99 FEVpcpred 70.5701833 FVC 1.284374952 FVCZ -1.532104047 FVCpcpred 80.97154043 FEV1FVC 0.770802956 FEV1FVCZ -1.749918419 cd4 326 vload 39 zwauk -2.9258451 zhauk -2.3301845 zbmiuk -1.852546 vllog 1.5910646 endtreatdate ['2018-12-17T00:00:00', '2018-12-17T00:00:00'] sp05time 09:20:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-06-03T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-06-03T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548239 SAMN22246679 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-12-17 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1157 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 11.6 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 14.131852 host_height 76.59110195 samp_size ['2', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2018-12-17T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 36145 FinalReads_ASVpipeline 5677 sampling_induced_expectorated expectorated barcode BSP0575 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 808890.43 templateDNA_16SqPCR_Cq 18.28832246 templateDNA_16SqPCR 0.573749205 well A10 plate_number P2 barcode_806R 806rcbc176 index_sequence TGGCACCGATTA DOB 2007-05-03T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2018-01 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2011-02-20T00:00:00 datehiv 2011-02-01T00:00:00 ageyart 3.8 duryart 6.9 artdrug1stline no artdrug2ndline yes artreg ATV/LPV/PI fev1z -1.826629464 weight 24.4 f24mrcscore 1 FEV1_baseline 1.190000057 FEVpcpred 76.59110195 FVC 1.522500038 FVCZ -1.095243568 FVCpcpred 86.44877042 FEV1FVC 0.781609213 FEV1FVCZ -1.581432578 cd4 298 vload 39 zwauk -2.836535 zhauk -2.1463425 zbmiuk -2.0842493 vllog 1.5910646 endtreatdate ['NA', '2018-12-17T00:00:00'] sp05time 10:26:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-06-03T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-06-03T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548240 SAMN22246714 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-06-03 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1157 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 12 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 14.6984 host_height 76.59774304 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 72 visit_date 2019-06-03T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 36135 FinalReads_ASVpipeline 12472 sampling_induced_expectorated expectorated barcode BSP0681 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 722151.01 templateDNA_16SqPCR_Cq 18.45853237 templateDNA_16SqPCR 0.512224584 well A11 plate_number P2 barcode_806R 806rcbc184 index_sequence GACTCGAATCGT DOB 2007-05-03T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2018-01 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2011-02-20T00:00:00 datehiv 2011-02-01T00:00:00 ageyart 3.8 duryart 6.9 artdrug1stline no artdrug2ndline yes artreg ATV/LPV/PI fev1z -1.804961911 weight 26 f24mrcscore 1 FEV1_baseline 1.24000001 FEVpcpred 76.59774304 FVC 1.647500038 FVCZ -0.81530276 FVCpcpred 89.91258523 FEV1FVC 0.752655527 FEV1FVCZ -1.983235221 cd4 NA vload NA zwauk -2.6128678 zhauk -2.1860523 zbmiuk -1.7687768 vllog NA endtreatdate ['NA', '2018-12-17T00:00:00'] sp05time 09:00:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-06-03T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-06-03T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548241 SAMN22246680 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-12-18 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1158 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 10.3 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 14.791735 host_height 75.89184886 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2018-12-18T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 26730 FinalReads_ASVpipeline 9083 sampling_induced_expectorated expectorated barcode BSP0576 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 384690.35 templateDNA_16SqPCR_Cq 19.4756509 templateDNA_16SqPCR 0.272862395 well B08 plate_number P1 barcode_806R 806rcbc65 index_sequence GAAGTTGGAAGT DOB 2008-08-20T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2018-01 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2016-05-15T00:00:00 datehiv 2009-02-15T00:00:00 ageyart 7.73 duryart 1.67 artdrug1stline no artdrug2ndline yes artreg ATV/LPV/PI fev1z -1.912179205 weight 21.8 f24mrcscore 1 FEV1_baseline 0.959999979 FEVpcpred 75.89184886 FVC 1.201874971 FVCZ -1.226610065 FVCpcpred 84.69254486 FEV1FVC 0.798751951 FEV1FVCZ -1.434224615 cd4 756 vload 39 zwauk -2.9833181 zhauk -2.952306 zbmiuk -1.1447967 vllog 1.5910646 endtreatdate ['NA', '2018-12-18T00:00:00'] sp05time 08:55:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-06-04T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-06-04T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548242 SAMN22246715 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-06-04 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1158 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 10.7 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 15.072309 host_height 82.03830367 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 72 visit_date 2019-06-04T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 33909 FinalReads_ASVpipeline 13278 sampling_induced_expectorated expectorated barcode BSP0682 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 249137.45 templateDNA_16SqPCR_Cq 20.10589002 templateDNA_16SqPCR 0.176714183 well B09 plate_number P1 barcode_806R 806rcbc73 index_sequence GACGGAACCCAT DOB 2008-08-20T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2018-01 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2016-05-15T00:00:00 datehiv 2009-02-15T00:00:00 ageyart 7.73 duryart 1.67 artdrug1stline no artdrug2ndline yes artreg ATV/LPV/PI fev1z -1.426624554 weight 23.4 f24mrcscore 1 FEV1_baseline 1.110000014 FEVpcpred 82.03830367 FVC 1.384374976 FVCZ -0.73801612 FVCpcpred 90.81581775 FEV1FVC 0.801805893 FEV1FVCZ -1.350086122 cd4 NA vload NA zwauk -2.6739631 zhauk -2.7127314 zbmiuk -1.065154 vllog NA endtreatdate ['NA', '2018-12-18T00:00:00'] sp05time 09:00:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-06-04T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-06-04T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548243 SAMN22246615 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-01-16 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1158 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 9.4 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 14.515895 host_height 75.51929539 samp_size ['2', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2018-01-12T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 33701 FinalReads_ASVpipeline 8691 sampling_induced_expectorated expectorated barcode BSP0271 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 27402.79 templateDNA_16SqPCR_Cq 23.30813637 templateDNA_16SqPCR 0.0194 well B07 plate_number P1 barcode_806R 806rcbc57 index_sequence CGCAGCGGTATA DOB 2008-08-20T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2018-01 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2016-05-15T00:00:00 datehiv 2009-02-15T00:00:00 ageyart 7.73 duryart 1.67 artdrug1stline no artdrug2ndline yes artreg ATV/LPV/PI fev1z -1.9115589 weight 19.6 f24mrcscore 1 FEV1_baseline 0.85 FEVpcpred 75.51929539 FVC 0.96312499 FVCZ -1.822080658 FVCpcpred 76.98378048 FEV1FVC 0.882543836 FEV1FVCZ -0.278321677 cd4 695 vload 1470 zwauk -3.2715919 zhauk -3.2237289 zbmiuk -1.1356685 vllog 3.1673174 endtreatdate ['2018-12-18T00:00:00', '2018-12-18T00:00:00'] sp05time 08:31:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-06-04T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-06-04T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548244 SAMN22246616 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-01-17 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1159 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 17.6 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 20 host_height 76.46013181 samp_size ['2', ''] study_complt_stat withdrawal isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2018-01-10T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 15942 FinalReads_ASVpipeline 4462 sampling_induced_expectorated expectorated barcode BSP0272 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 200055.27 templateDNA_16SqPCR_Cq 20.42 templateDNA_16SqPCR 0.1419 well F01 plate_number P3 barcode_806R 806rcbc206 index_sequence TTGCAGACAGGC DOB 2000-05-06T00:00:00 trial_arm Azithromycin adherence Not Adherent enrolmonth 2018-01 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2009-02-01T00:00:00 datehiv 2006-05-15T00:00:00 ageyart 8.74 duryart 8.96 artdrug1stline no artdrug2ndline yes artreg ATV/LPV/PI fev1z -1.790702 weight 51.2 f24mrcscore 1 FEV1_baseline 2.11 FEVpcpred 76.46013181 FVC 2.7318749430000002 FVCZ -0.870242968 FVCpcpred 88.5387281 FEV1FVC 0.772363281 FEV1FVCZ -1.84632686 cd4 418 vload 10400 zwauk -0.82907385 zhauk -0.58588612 zbmiuk -0.43447414 vllog 4.0170336 endtreatdate ['2018-02-28T00:00:00', '2018-02-28T00:00:00'] sp05time 09:21:00 all_3 no visit012 no visit1218 no visit018 no only2visits no one_visit yes endfollowup 2018-05-08T00:00:00 dow 43228 dod NA lastvisit 2 wks visittotno 1 lastvisitdate 2018-01-31T00:00:00 treatstopreason Refused cough_enrl no cotrimoxazole yes adm yes nadm 1 tbtreat yes acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548245 SAMN22246684 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-01-10 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1161 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 16.7 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage NA host_hiv_stat yes host_body_mass_index 20.897608 host_height 82.62597049 samp_size ['2', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2019-01-10T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 39598 FinalReads_ASVpipeline 16255 sampling_induced_expectorated expectorated barcode BSP0589 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 19949.13 templateDNA_16SqPCR_Cq 23.83 templateDNA_16SqPCR 0.01415 well D01 plate_number P3 barcode_806R 806rcbc204 index_sequence TAAAGTCACCCT DOB 2002-03-29T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2018-01 attendschool yes rs15antibty NA rs14antib no dateart 2012-09-15T00:00:00 datehiv 2012-08-15T00:00:00 ageyart 10.47 duryart 5.36 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.329354439 weight 48.6 f24mrcscore 1 FEV1_baseline 2.049999952 FEVpcpred 82.62597049 FVC 2.33812499 FVCZ -1.138486756 FVCpcpred 85.11512596 FEV1FVC 0.8767709 FEV1FVCZ -0.492653451 cd4 262 vload 20400 zwauk -1.1136918 zhauk -1.8138041 zbmiuk 0.049980704 vllog 4.3096304 endtreatdate ['NA', '2019-01-09T00:00:00'] sp05time 11:45:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-06-18T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-06-18T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548246 SAMN22246617 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-01-24 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1161 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 15.8 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 18.759933 host_height 79.62252165 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2018-01-09T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 35094 FinalReads_ASVpipeline 15027 sampling_induced_expectorated expectorated barcode BSP0278 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 1223914.32 templateDNA_16SqPCR_Cq 17.58495831 templateDNA_16SqPCR 0.868127297 well C12 plate_number P3 barcode_806R 806rcbc291 index_sequence CGCATGAGGATC DOB 2002-03-29T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2018-01 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2012-09-15T00:00:00 datehiv 2012-08-15T00:00:00 ageyart 10.47 duryart 5.36 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.5550866 weight 43.4 f24mrcscore 2 FEV1_baseline 1.93 FEVpcpred 79.62252165 FVC 2.190624952 FVCZ -1.39932489 FVCpcpred 81.85470563 FEV1FVC 0.881027099 FEV1FVCZ -0.455448832 cd4 259 vload 116000 zwauk -1.7547728 zhauk -1.8037235 zbmiuk -0.67399621 vllog 5.0644579 endtreatdate ['2019-01-09T00:00:00', '2019-01-09T00:00:00'] sp05time 10:25:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-06-18T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-06-18T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548247 SAMN22246594 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2017-08-07 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1102 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 19 ethnicity black host_occupation missing host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 19.068342 host_height 80.43947551 samp_size ['2', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2017-08-01T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 46534 FinalReads_ASVpipeline 16419 sampling_induced_expectorated expectorated barcode BSP0136 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 114226.61 templateDNA_16SqPCR_Cq 21.17018589 templateDNA_16SqPCR 0.08102139 well D08 plate_number P4 barcode_806R 806rcbc356 index_sequence CTGGTTAATCTG DOB 1998-07-09T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2017-08 attendschool no rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2014-09-12T00:00:00 datehiv 2014-08-19T00:00:00 ageyart 16.18 duryart 2.9 artdrug1stline no artdrug2ndline yes artreg ATV/LPV/PI fev1z -1.5142661 weight 57.4 f24mrcscore 2 FEV1_baseline 3 FEVpcpred 80.43947551 FVC 3.724999905 FVCZ -1.109484014 FVCpcpred 86.18073546 FEV1FVC 0.805369148 FEV1FVCZ -0.968268678 cd4 338 vload 372 zwauk -1.4176643 zhauk -0.54321873 zbmiuk -1.166582 vllog 2.5705431 endtreatdate ['2018-07-09T00:00:00', '2018-07-09T00:00:00'] sp05time 09:55:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-01-08T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-01-08T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat yes acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548248 SAMN22246718 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-06-18 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1161 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 17.2 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage C host_hiv_stat yes host_body_mass_index 20.884029 host_height 81.25666883 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 72 visit_date 2019-06-18T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 33000 FinalReads_ASVpipeline 12852 sampling_induced_expectorated expectorated barcode BSP0693 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 1163253.02 templateDNA_16SqPCR_Cq 17.82 templateDNA_16SqPCR 0.8251 well D02 plate_number P3 barcode_806R 806rcbc212 index_sequence TGGACACCGAAC DOB 2002-03-29T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2018-01 attendschool yes rs15antibty C rs14antib yes dateart 2012-09-15T00:00:00 datehiv 2012-08-15T00:00:00 ageyart 10.47 duryart 5.36 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.432246533 weight 49.4 f24mrcscore 2 FEV1_baseline 2.0599999430000002 FEVpcpred 81.25666883 FVC 2.336874962 FVCZ -1.297593374 FVCpcpred 83.0363297 FEV1FVC 0.881519113 FEV1FVCZ -0.385162309 cd4 NA vload 30300 zwauk -1.0507177 zhauk -1.6061927 zbmiuk -0.016433677 vllog 4.4814425 endtreatdate ['NA', '2019-01-09T00:00:00'] sp05time 12:03:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-06-18T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-06-18T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548249 SAMN22246618 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-02-01 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1169 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 18.4 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 18.974205 host_height 69.6990929 samp_size ['2', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2018-01-23T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 42440 FinalReads_ASVpipeline 14106 sampling_induced_expectorated expectorated barcode BSP0289 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 55815.28 templateDNA_16SqPCR_Cq 22.31 templateDNA_16SqPCR 0.03959 well D02 plate_number P2 barcode_806R 806rcbc115 index_sequence ATACCTTCGGTA DOB 1999-09-07T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2018-02 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2007-04-03T00:00:00 datehiv 2006-07-24T00:00:00 ageyart 7.57 duryart 10.83 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -2.3080287 weight 54 f24mrcscore 1 FEV1_baseline 2.42 FEVpcpred 69.6990929 FVC 2.790625095 FVCZ -2.42963615 FVCpcpred 69.90206626 FEV1FVC 0.867189247 FEV1FVCZ -0.129056501 cd4 483 vload 44 zwauk -1.7749079 zhauk -1.2238618 zbmiuk -1.0622969 vllog 1.6434526 endtreatdate ['2019-01-03T00:00:00', '2019-01-03T00:00:00'] sp05time 09:00:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-06-20T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-06-20T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548250 SAMN22246685 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-01-11 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1169 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 19.3 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage NA host_hiv_stat yes host_body_mass_index 18.959591 host_height 73.87296839 samp_size ['NA', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2019-01-11T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 39478 FinalReads_ASVpipeline 16740 sampling_induced_expectorated NA barcode BSP0595 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 613095.44 templateDNA_16SqPCR_Cq 18.70419826 templateDNA_16SqPCR 0.434871034 well D03 plate_number P2 barcode_806R 806rcbc123 index_sequence GTCTACACACAT DOB 1999-09-07T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2018-02 attendschool yes rs15antibty NA rs14antib NA dateart 2007-04-03T00:00:00 datehiv 2006-07-24T00:00:00 ageyart 7.57 duryart 10.83 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -2.016912593 weight 54.6 f24mrcscore 1 FEV1_baseline 2.630000114 FEVpcpred 73.87296839 FVC 3.109375 FVCZ -1.963648047 FVCpcpred 75.61378925 FEV1FVC 0.845829183 FEV1FVCZ -0.407679598 cd4 456 vload 0 zwauk -1.9024364 zhauk -1.0896634 zbmiuk -1.2846664 vllog 0 endtreatdate ['NA', '2019-01-03T00:00:00'] sp05time NA all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-06-20T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-06-20T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548251 SAMN22246719 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-06-20 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1169 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 19.7 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage NA host_hiv_stat yes host_body_mass_index 18.959591 host_height 76.13918929 samp_size ['2', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 72 visit_date 2019-06-20T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 56585 FinalReads_ASVpipeline 22398 sampling_induced_expectorated NA barcode BSP0699 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 45084.47 templateDNA_16SqPCR_Cq 22.62069347 templateDNA_16SqPCR 0.031978593 well D04 plate_number P2 barcode_806R 806rcbc131 index_sequence CCTAGTACTGAT DOB 1999-09-07T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2018-02 attendschool yes rs15antibty NA rs14antib NA dateart 2007-04-03T00:00:00 datehiv 2006-07-24T00:00:00 ageyart 7.57 duryart 10.83 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.851185806 weight 54.6 f24mrcscore 1 FEV1_baseline 2.720000029 FEVpcpred 76.13918929 FVC 3.204999924 FVCZ -1.804699013 FVCpcpred 77.56633775 FEV1FVC 0.848673976 FEV1FVCZ -0.345841904 cd4 NA vload NA zwauk -1.9808904 zhauk -1.0922076 zbmiuk -1.3786789 vllog NA endtreatdate ['NA', '2019-01-03T00:00:00'] sp05time 09:00:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-06-20T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-06-20T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548252 SAMN22246619 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-02-06 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1175 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 12.3 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 18.378258 host_height 83.07130206 samp_size ['2', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2018-01-30T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 29063 FinalReads_ASVpipeline 10864 sampling_induced_expectorated expectorated barcode BSP0296 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 1432279.83 templateDNA_16SqPCR_Cq 17.43095059 templateDNA_16SqPCR 1.015921786 well B07 plate_number P2 barcode_806R 806rcbc153 index_sequence GTGGGATGTTTC DOB 2005-10-12T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2018-02 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2017-02-28T00:00:00 datehiv 2014-04-17T00:00:00 ageyart 11.38 duryart 0.94 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.2958987 weight 33 f24mrcscore 1 FEV1_baseline 1.39 FEVpcpred 83.07130206 FVC 1.645624995 FVCZ -0.839622592 FVCpcpred 89.27729762 FEV1FVC 0.844663875 FEV1FVCZ -1.045319984 cd4 793 vload 39 zwauk -1.3458841 zhauk -2.4773064 zbmiuk 0.020957028 vllog 1.5910646 endtreatdate ['2019-01-08T00:00:00', '2019-01-08T00:00:00'] sp05time 10:31:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-06-25T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-06-25T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m yes hospitalised12m yes reason_hospi morexella catarhalis blood culture positive antibiotic12m no any3_reasons 2 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548253 SAMN22246720 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-06-25 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1175 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 13.7 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 20.177204 host_height 90.82079393 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 72 visit_date 2019-06-25T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 32767 FinalReads_ASVpipeline 4248 sampling_induced_expectorated expectorated barcode BSP0705 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 350892.49 templateDNA_16SqPCR_Cq 19.54158457 templateDNA_16SqPCR 0.248889439 well B09 plate_number P2 barcode_806R 806rcbc169 index_sequence GCTCAGTGCAGA DOB 2005-10-12T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2018-02 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2017-02-28T00:00:00 datehiv 2014-04-17T00:00:00 ageyart 11.38 duryart 0.94 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -0.707038583 weight 40.8 f24mrcscore 1 FEV1_baseline 1.820000052 FEVpcpred 90.82079393 FVC 1.995625019 FVCZ -0.72678837 FVCpcpred 90.61643652 FEV1FVC 0.911995007 FEV1FVCZ 0.038477898 cd4 NA vload NA zwauk -1.1055762 zhauk -2.4451425 zbmiuk 0.36773396 vllog NA endtreatdate ['NA', '2019-01-08T00:00:00'] sp05time 10:20:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-06-25T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-06-25T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m yes hospitalised12m yes reason_hospi morexella catarhalis blood culture positive antibiotic12m no any3_reasons 2 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548254 SAMN22246683 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-01-08 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1175 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 13.2 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 19.033936 host_height 87.8389942 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2019-01-08T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 43476 FinalReads_ASVpipeline 16343 sampling_induced_expectorated expectorated barcode BSP0584 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 301511.08 templateDNA_16SqPCR_Cq 19.76918265 templateDNA_16SqPCR 0.213863006 well B08 plate_number P2 barcode_806R 806rcbc161 index_sequence TAAACCGCGTGT DOB 2005-10-12T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2018-02 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2017-02-28T00:00:00 datehiv 2014-04-17T00:00:00 ageyart 11.38 duryart 0.94 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -0.934444545 weight 37.2 f24mrcscore 1 FEV1_baseline 1.669999957 FEVpcpred 87.8389942 FVC 1.883124948 FVCZ -0.771378763 FVCpcpred 90.07779407 FEV1FVC 0.886823766 FEV1FVCZ -0.394444954 cd4 1288 vload 39 zwauk -1.3504841 zhauk -2.436774 zbmiuk 0.043919642 vllog 1.5910646 endtreatdate ['NA', '2019-01-08T00:00:00'] sp05time 08:50:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-06-25T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-06-25T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m yes hospitalised12m yes reason_hospi morexella catarhalis blood culture positive antibiotic12m no any3_reasons 2 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548255 SAMN22246622 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-02-13 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1177 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 13.2 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 18.389742 host_height 76.05202467 samp_size ['2', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2018-02-08T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 36646 FinalReads_ASVpipeline 12940 sampling_induced_expectorated expectorated barcode BSP0303 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 175214.54 templateDNA_16SqPCR_Cq 20.58369237 templateDNA_16SqPCR 0.124280369 well E10 plate_number P2 barcode_806R 806rcbc180 index_sequence GATTGGTTGCAC DOB 2004-11-11T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2018-02 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2011-05-15T00:00:00 datehiv 2010-06-15T00:00:00 ageyart 6.51 duryart 6.75 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.8213047 weight 31.8 f24mrcscore 1 FEV1_baseline 1.27 FEVpcpred 76.05202467 FVC 1.398749948 FVCZ -1.824241279 FVCpcpred 76.84291002 FEV1FVC 0.90795355 FEV1FVCZ -0.131030373 cd4 533 vload 39 zwauk -2.3559175 zhauk -3.6648171 zbmiuk -0.23107915 vllog 1.5910646 endtreatdate ['2019-01-15T00:00:00', '2019-01-15T00:00:00'] sp05time 08:31:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-07-02T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-07-02T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat yes acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548256 SAMN22246690 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-01-25 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1177 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 14.2 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 18.848917 host_height 66.29024504 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2019-01-17T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 35461 FinalReads_ASVpipeline 8965 sampling_induced_expectorated expectorated barcode BSP0611 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 320763.74 templateDNA_16SqPCR_Cq 19.67629943 templateDNA_16SqPCR 0.227519001 well E11 plate_number P2 barcode_806R 806rcbc188 index_sequence ACGATGCGACCA DOB 2004-11-11T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2018-02 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2011-05-15T00:00:00 datehiv 2010-06-15T00:00:00 ageyart 6.51 duryart 6.75 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -2.539964597 weight 36 f24mrcscore 1 FEV1_baseline 1.269999981 FEVpcpred 66.29024504 FVC 1.526250005 FVCZ -2.125321204 FVCpcpred 72.95854991 FEV1FVC 0.832104817 FEV1FVCZ -1.301017201 cd4 720 vload 0 zwauk -2.278625 zhauk -3.3991129 zbmiuk -0.27027491 vllog 0 endtreatdate ['NA', '2019-01-15T00:00:00'] sp05time 08:17:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-07-02T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-07-02T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat yes acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548257 SAMN22246723 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-07-02 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1177 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 14.6 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 19.857904 host_height 65.68149416 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 72 visit_date 2019-07-02T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 34573 FinalReads_ASVpipeline 8111 sampling_induced_expectorated expectorated barcode BSP0710 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 29366.61 templateDNA_16SqPCR_Cq 23.26396235 templateDNA_16SqPCR 0.020829856 well E12 plate_number P2 barcode_806R 806rcbc196 index_sequence ATTCTGTGAGCG DOB 2004-11-11T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2018-02 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2011-05-15T00:00:00 datehiv 2010-06-15T00:00:00 ageyart 6.51 duryart 6.75 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -2.584416496 weight 39.2 f24mrcscore 1 FEV1_baseline 1.320000052 FEVpcpred 65.68149416 FVC 1.658750057 FVCZ -1.912799057 FVCpcpred 75.52298752 FEV1FVC 0.795779959 FEV1FVCZ -1.760061162 cd4 NA vload NA zwauk -1.980005 zhauk -3.3121626 zbmiuk 0.038617704 vllog NA endtreatdate ['NA', '2019-01-15T00:00:00'] sp05time 09:05:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-07-02T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-07-02T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat yes acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548258 SAMN22246650 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-07-09 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1102 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 20 ethnicity black host_occupation missing host_disease HIV-associated chronic lung disease drug_usage NA host_hiv_stat yes host_body_mass_index 18.572662 host_height 78.83121508 samp_size ['2', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2018-07-09T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 59243 FinalReads_ASVpipeline 18031 sampling_induced_expectorated expectorated barcode BSP0450 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 11560.55 templateDNA_16SqPCR_Cq 24.54363307 templateDNA_16SqPCR 0.008199947 well D09 plate_number P4 barcode_806R 806rcbc364 index_sequence TGACTTTGTGTG DOB 1998-07-09T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2017-08 attendschool no rs15antibty NA rs14antib no dateart 2014-09-12T00:00:00 datehiv 2014-08-19T00:00:00 ageyart 16.18 duryart 2.9 artdrug1stline no artdrug2ndline yes artreg ATV/LPV/PI fev1z -1.647917592 weight 57.4 f24mrcscore 1 FEV1_baseline 3.049999952 FEVpcpred 78.83121508 FVC 3.944999933 FVCZ -1.002641276 FVCpcpred 87.49747159 FEV1FVC 0.773130546 FEV1FVCZ -1.353065984 cd4 535 vload NA zwauk -1.5696565 zhauk -0.22101969 zbmiuk -1.6463777 vllog NA endtreatdate ['NA', '2018-07-09T00:00:00'] sp05time 12:03:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-01-08T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-01-08T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat yes acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548259 SAMN22246688 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-01-22 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1182 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 11 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 15.710699 host_height 75.43065042 samp_size ['1.5', ''] study_complt_stat study ended isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2019-01-22T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 42488 FinalReads_ASVpipeline 19113 sampling_induced_expectorated expectorated barcode BSP0604 sequencing_controls no sequencing_control_details NA WRrepeats AP WRrepeats_WP AP WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 547857.43 templateDNA_16SqPCR_Cq 18.87302211 templateDNA_16SqPCR 0.388597457 well H05 plate_number P2 barcode_806R 806rcbc143 index_sequence CACATCTAACAC DOB 2007-12-17T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2018-02 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2014-06-03T00:00:00 datehiv 2014-02-14T00:00:00 ageyart 6.46 duryart 3.72 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.868603433 weight 28 f24mrcscore 1 FEV1_baseline 1.190000057 FEVpcpred 75.43065042 FVC 1.36937499 FVCZ -1.750412344 FVCpcpred 78.03098 FEV1FVC 0.869009633 FEV1FVCZ -0.56625217 cd4 1077 vload 39 zwauk -1.4945714 zhauk -1.6118658 zbmiuk -0.92573506 vllog 1.5910646 endtreatdate ['NA', '2019-01-22T00:00:00'] sp05time 08:42:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-07-09T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-07-09T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat yes acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548260 SAMN22246623 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-02-20 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1182 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 10.1 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage NA host_hiv_stat yes host_body_mass_index 14.678224 host_height 73.72644602 samp_size ['NA', ''] study_complt_stat study ended isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2018-02-15T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 52538 FinalReads_ASVpipeline 22954 sampling_induced_expectorated expectorated barcode BSP0313 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 73407.67 templateDNA_16SqPCR_Cq 21.88917355 templateDNA_16SqPCR 0.05206835 well H04 plate_number P2 barcode_806R 806rcbc135 index_sequence TGCAATGTTGCT DOB 2007-12-17T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2018-02 attendschool yes rs15antibty NA rs14antib NA dateart 2014-06-03T00:00:00 datehiv 2014-02-14T00:00:00 ageyart 6.46 duryart 3.72 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.9920948 weight 23.6 f24mrcscore 1 FEV1_baseline 1.01 FEVpcpred 73.72644602 FVC 1.161249995 FVCZ -1.885495014 FVCpcpred 76.37272231 FEV1FVC 0.869752417 FEV1FVCZ -0.592386561 cd4 666 vload 0 zwauk -2.0583549 zhauk -1.9582577 zbmiuk -1.2857618 vllog 0 endtreatdate ['2019-01-22T00:00:00', '2019-01-22T00:00:00'] sp05time NA all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-07-09T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-07-09T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat yes acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548261 SAMN22246725 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-07-09 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1182 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 11.5 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 15.57713 host_height 71.69382832 samp_size ['1', ''] study_complt_stat study ended isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 72 visit_date 2019-07-09T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 53162 FinalReads_ASVpipeline 22662 sampling_induced_expectorated expectorated barcode BSP0718 sequencing_controls no sequencing_control_details NA WRrepeats AV WRrepeats_WP AV WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 21260.26 templateDNA_16SqPCR_Cq 23.74867867 templateDNA_16SqPCR 0.015079989 well H07 plate_number P2 barcode_806R 806rcbc159 index_sequence GCCTGAATTTAC DOB 2007-12-17T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2018-02 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2014-06-03T00:00:00 datehiv 2014-02-14T00:00:00 ageyart 6.46 duryart 3.72 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -2.145352005 weight 28.6 f24mrcscore 1 FEV1_baseline 1.190000057 FEVpcpred 71.69382832 FVC 1.421249986 FVCZ -1.823764591 FVCpcpred 77.09136625 FEV1FVC 0.837291166 FEV1FVCZ -1.080419246 cd4 NA vload NA zwauk -1.6534417 zhauk -1.6622741 zbmiuk -1.1492498 vllog NA endtreatdate ['NA', '2019-01-22T00:00:00'] sp05time 09:10:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-07-09T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-07-09T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat yes acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548262 SAMN22246624 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-03-01 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1184 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 18 ethnicity black host_occupation missing host_disease HIV-associated chronic lung disease drug_usage NA host_hiv_stat yes host_body_mass_index 28.874737 host_height 85.17076643 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2018-02-26T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 38857 FinalReads_ASVpipeline 10629 sampling_induced_expectorated expectorated barcode BSP0326 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 106625.28 templateDNA_16SqPCR_Cq 21.23219588 templateDNA_16SqPCR 0.075629733 well E10 plate_number P3 barcode_806R 806rcbc277 index_sequence CGAGATACCCAG DOB 2000-02-24T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2018-03 attendschool no rs15antibty NA rs14antib no dateart 2008-06-15T00:00:00 datehiv 2008-06-01T00:00:00 ageyart 8.31 duryart 9.71 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.1365359 weight 66.8 f24mrcscore 2 FEV1_baseline 2.11 FEVpcpred 85.17076643 FVC 2.64625001 FVCZ -0.2924402 FVCpcpred 96.11592872 FEV1FVC 0.797354705 FEV1FVCZ -1.579837834 cd4 956 vload 39 zwauk 1.0079206 zhauk -1.8979985 zbmiuk 2.0471518 vllog 1.5910646 endtreatdate ['2019-01-31T00:00:00', '2019-01-31T00:00:00'] sp05time 09:40:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-07-18T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-07-18T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole no adm no nadm NA tbtreat no acut_exac12m yes hospitalised12m no reason_hospi no antibiotic12m yes any3_reasons 2 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548263 SAMN22246692 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-01-31 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1184 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 18.9 ethnicity black host_occupation missing host_disease HIV-associated chronic lung disease drug_usage NA host_hiv_stat yes host_body_mass_index 27.813944 host_height 83.51059002 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2019-01-31T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 36297 FinalReads_ASVpipeline 10463 sampling_induced_expectorated expectorated barcode BSP0618 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 42180.31 templateDNA_16SqPCR_Cq 22.61811822 templateDNA_16SqPCR 0.029918662 well E11 plate_number P3 barcode_806R 806rcbc285 index_sequence CGATTTCTCAAG DOB 2000-02-24T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2018-03 attendschool no rs15antibty NA rs14antib no dateart 2008-06-15T00:00:00 datehiv 2008-06-01T00:00:00 ageyart 8.31 duryart 9.71 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.260940935 weight 64.6 f24mrcscore 1 FEV1_baseline 2.089999914 FEVpcpred 83.51059002 FVC 2.498749971 FVCZ -0.795682332 FVCpcpred 89.45968892 FEV1FVC 0.836418184 FEV1FVCZ -1.000192815 cd4 607 vload 39 zwauk 0.74983591 zhauk -1.8594005 zbmiuk 1.7747906 vllog 1.5910646 endtreatdate ['NA', '2019-01-31T00:00:00'] sp05time 09:35:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-07-18T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-07-18T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole no adm no nadm NA tbtreat no acut_exac12m yes hospitalised12m no reason_hospi no antibiotic12m yes any3_reasons 2 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548264 SAMN22246726 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-07-18 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1184 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 19.3 ethnicity black host_occupation missing host_disease HIV-associated chronic lung disease drug_usage NONE host_hiv_stat yes host_body_mass_index 29.536171 host_height 82.68216781 samp_size ['1.5', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 72 visit_date 2019-07-18T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 35119 FinalReads_ASVpipeline 6221 sampling_induced_expectorated expectorated barcode BSP0720 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 13500.46 templateDNA_16SqPCR_Cq 24.32066346 templateDNA_16SqPCR 0.009575927 well E12 plate_number P3 barcode_806R 806rcbc293 index_sequence ATAGCGGTCTGG DOB 2000-02-24T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2018-03 attendschool no rs15antibty NONE rs14antib no dateart 2008-06-15T00:00:00 datehiv 2008-06-01T00:00:00 ageyart 8.31 duryart 9.71 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.322650602 weight 68.6 f24mrcscore 1 FEV1_baseline 2.069999933 FEVpcpred 82.68216781 FVC 2.631249905 FVCZ -0.45067016 FVCpcpred 93.99511998 FEV1FVC 0.78669834 FEV1FVCZ -1.637441856 cd4 NA vload NA zwauk 1.1293826 zhauk -1.8593718 zbmiuk 2.0891607 vllog NA endtreatdate ['NA', '2019-01-31T00:00:00'] sp05time 09:45:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-07-18T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-07-18T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole no adm no nadm NA tbtreat no acut_exac12m yes hospitalised12m no reason_hospi no antibiotic12m yes any3_reasons 2 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548265 SAMN22246625 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-03-05 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1187 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 19 ethnicity black host_occupation missing host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 15.020821 host_height 77.72384971 samp_size ['2', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2018-03-01T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 61232 FinalReads_ASVpipeline 9405 sampling_induced_expectorated expectorated barcode BSP0329 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 405200.91 templateDNA_16SqPCR_Cq 19.40029461 templateDNA_16SqPCR 0.28741062 well A11 plate_number P1 barcode_806R 806rcbc88 index_sequence CACGGTTGTGAG DOB 1999-03-01T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2018-03 attendschool no rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2009-07-15T00:00:00 datehiv 2009-07-01T00:00:00 ageyart 10.37 duryart 8.64 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.7197702 weight 40.4 f24mrcscore 1 FEV1_baseline 2.56 FEVpcpred 77.72384971 FVC NA FVCZ NA FVCpcpred NA FEV1FVC NA FEV1FVCZ NA cd4 356 vload 39 zwauk -4.749042 zhauk -1.9038515 zbmiuk -4.0784078 vllog 1.5910646 endtreatdate ['2019-02-04T00:00:00', '2019-02-04T00:00:00'] sp05time 11:00:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-07-23T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-07-23T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548266 SAMN22246727 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-07-23 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1187 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 20.3 ethnicity black host_occupation missing host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 16.049072 host_height 75.36123113 samp_size ['1.5', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 72 visit_date 2019-07-23T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 59492 FinalReads_ASVpipeline 20729 sampling_induced_expectorated expectorated barcode BSP0722 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 130931.17 templateDNA_16SqPCR_Cq 21.05 templateDNA_16SqPCR 0.09287 well B01 plate_number P1 barcode_806R 806rcbc9 index_sequence GTATGCGCTGTA DOB 1999-03-01T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2018-03 attendschool no rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2009-07-15T00:00:00 datehiv 2009-07-01T00:00:00 ageyart 10.37 duryart 8.64 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.915130629 weight 48.2 f24mrcscore 1 FEV1_baseline 2.829999924 FEVpcpred 75.36123113 FVC 3.285000086 FVCZ -1.996315893 FVCpcpred 75.18770422 FEV1FVC 0.861491583 FEV1FVCZ -0.074716858 cd4 NA vload NA zwauk -3.2777259 zhauk -0.59303319 zbmiuk -3.5156672 vllog NA endtreatdate ['NA', '2019-02-04T00:00:00'] sp05time 10:20:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-07-23T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-07-23T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548267 SAMN22246693 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-02-04 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1187 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 19.9 ethnicity black host_occupation missing host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 16.483704 host_height 83.31360732 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2019-02-04T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 37979 FinalReads_ASVpipeline 14172 sampling_induced_expectorated expectorated barcode BSP0620 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 3050869.4 templateDNA_16SqPCR_Cq 16.47159639 templateDNA_16SqPCR 2.163993808 well A12 plate_number P1 barcode_806R 806rcbc96 index_sequence GAAGAAGCGGTA DOB 1999-03-01T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2018-03 attendschool no rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2009-07-15T00:00:00 datehiv 2009-07-01T00:00:00 ageyart 10.37 duryart 8.64 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.303182633 weight 48.2 f24mrcscore 1 FEV1_baseline 3.029999971 FEVpcpred 83.31360732 FVC 3.539375067 FVCZ -1.286190272 FVCpcpred 83.97892224 FEV1FVC 0.856083324 FEV1FVCZ -0.209434348 cd4 490 vload 39 zwauk -3.1869154 zhauk -0.90853608 zbmiuk -3.0515013 vllog 1.5910646 endtreatdate ['NA', '2019-02-04T00:00:00'] sp05time 09:35:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-07-23T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-07-23T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548268 SAMN22246682 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-01-08 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1102 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 20.5 ethnicity black host_occupation missing host_disease HIV-associated chronic lung disease drug_usage NA host_hiv_stat yes host_body_mass_index 18.054956 host_height 83.54155552 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 72 visit_date 2019-01-08T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 39045 FinalReads_ASVpipeline 8679 sampling_induced_expectorated expectorated barcode BSP0582 sequencing_controls no sequencing_control_details NA WRrepeats AM WRrepeats_WP AM WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 229966.75 templateDNA_16SqPCR_Cq 20.13963231 templateDNA_16SqPCR 0.163116329 well D10 plate_number P4 barcode_806R 806rcbc372 index_sequence AGTGTTCGATCG DOB 1998-07-09T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2017-08 attendschool no rs15antibty NA rs14antib no dateart 2014-09-12T00:00:00 datehiv 2014-08-19T00:00:00 ageyart 16.18 duryart 2.9 artdrug1stline no artdrug2ndline yes artreg ATV/LPV/PI fev1z -1.288345264 weight 55.8 f24mrcscore 1 FEV1_baseline 3.24000001 FEVpcpred 83.54155552 FVC 3.661250114 FVCZ -1.53467527 FVCpcpred 80.88992837 FEV1FVC 0.884943642 FEV1FVCZ 0.342008791 cd4 NA vload 0 zwauk -1.8924545 zhauk -0.23592852 zbmiuk -2.0704193 vllog 0 endtreatdate ['NA', '2018-07-09T00:00:00'] sp05time 09:15:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-01-08T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-01-08T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat yes acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548269 SAMN22246626 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-03-13 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1188 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 15.2 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 19.053896 host_height 64.04274515 samp_size ['2', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2018-03-08T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 37971 FinalReads_ASVpipeline 13295 sampling_induced_expectorated expectorated barcode BSP0343 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 158507.44 templateDNA_16SqPCR_Cq 20.68768938 templateDNA_16SqPCR 0.11242996 well G12 plate_number P4 barcode_806R 806rcbc6 index_sequence AGGCTACACGAC DOB 2002-12-01T00:00:00 trial_arm Placebo adherence Not Adherent enrolmonth 2018-03 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2011-07-15T00:00:00 datehiv 2011-05-12T00:00:00 ageyart 8.62 duryart 6.66 artdrug1stline no artdrug2ndline yes artreg ATV/LPV/PI fev1z -2.7036684 weight 38.8 f24mrcscore 1 FEV1_baseline 1.35 FEVpcpred 64.04274515 FVC 1.41624999 FVCZ -3.054192911 FVCpcpred 61.39635291 FEV1FVC 0.953221559 FEV1FVCZ 0.745440502 cd4 856 vload 3700 zwauk -2.4042127 zhauk -3.2212446 zbmiuk -0.4306052 vllog 3.5682018 endtreatdate ['2019-02-12T00:00:00', '2019-02-12T00:00:00'] sp05time 09:33:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-07-30T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-07-30T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole no adm no nadm NA tbtreat yes acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548270 SAMN22246697 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-02-12 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1188 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 16.2 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage NA host_hiv_stat yes host_body_mass_index 19.429018 host_height 76.29119719 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2019-02-12T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 43883 FinalReads_ASVpipeline 11009 sampling_induced_expectorated expectorated barcode BSP0631 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 1914552.91 templateDNA_16SqPCR_Cq 17.09 templateDNA_16SqPCR 1.358 well H01 plate_number P4 barcode_806R 806rcbc304 index_sequence AGCTATCCACGA DOB 2002-12-01T00:00:00 trial_arm Placebo adherence Not Adherent enrolmonth 2018-03 attendschool yes rs15antibty NA rs14antib no dateart 2011-07-15T00:00:00 datehiv 2011-05-12T00:00:00 ageyart 8.62 duryart 6.66 artdrug1stline no artdrug2ndline yes artreg ATV/LPV/PI fev1z -1.803944954 weight 40.4 f24mrcscore 1 FEV1_baseline 1.669999957 FEVpcpred 76.29119719 FVC 1.741250038 FVCZ -2.135204255 FVCpcpred 72.52444017 FEV1FVC 0.959081074 FEV1FVCZ 0.878918093 cd4 723 vload 6580 zwauk -2.437427 zhauk -3.1449687 zbmiuk -0.4455128 vllog 3.8182259 endtreatdate ['NA', '2019-02-12T00:00:00'] sp05time 11:10:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-07-30T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-07-30T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole no adm no nadm NA tbtreat yes acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548271 SAMN22246728 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-07-30 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1188 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 16.6 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage NA host_hiv_stat yes host_body_mass_index 20.217051 host_height 75.34882782 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 72 visit_date 2019-07-30T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 48756 FinalReads_ASVpipeline 16296 sampling_induced_expectorated expectorated barcode BSP0727 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats U EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 75172.28 templateDNA_16SqPCR_Cq 21.87 templateDNA_16SqPCR 0.05332 well H02 plate_number P4 barcode_806R 806rcbc312 index_sequence CTCGGCAATTAT DOB 2002-12-01T00:00:00 trial_arm Placebo adherence Not Adherent enrolmonth 2018-03 attendschool yes rs15antibty NA rs14antib no dateart 2011-07-15T00:00:00 datehiv 2011-05-12T00:00:00 ageyart 8.62 duryart 6.66 artdrug1stline no artdrug2ndline yes artreg ATV/LPV/PI fev1z -1.873976437 weight 42.8 f24mrcscore 2 FEV1_baseline 1.69 FEVpcpred 75.34882782 FVC NA FVCZ NA FVCpcpred NA FEV1FVC NA FEV1FVCZ NA cd4 NA vload 22900 zwauk -2.0851645 zhauk -2.9637737 zbmiuk -0.19432406 vllog 4.3598356 endtreatdate ['NA', '2019-02-12T00:00:00'] sp05time 10:00:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-07-30T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-07-30T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole no adm no nadm NA tbtreat yes acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548272 SAMN22246628 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-03-16 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1192 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 12.5 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 15.633053 host_height 85.21264771 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2018-03-13T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 48938 FinalReads_ASVpipeline 18947 sampling_induced_expectorated expectorated barcode BSP0350 sequencing_controls no sequencing_control_details NA WRrepeats R WRrepeats_WP NA WRrepeats_BP R BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 22281.64 templateDNA_16SqPCR_Cq 23.67826657 templateDNA_16SqPCR 0.015804454 well A12 plate_number P2 barcode_806R 806rcbc192 index_sequence CGCAAATTCGAC DOB 2005-08-20T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2018-03 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2007-11-15T00:00:00 datehiv 2006-06-15T00:00:00 ageyart 2.24 duryart 10.33 artdrug1stline no artdrug2ndline yes artreg ATV/LPV/PI fev1z -1.1317533 weight 29 f24mrcscore 1 FEV1_baseline 1.48 FEVpcpred 85.21264771 FVC 1.84937501 FVCZ -0.477133759 FVCpcpred 94.09127249 FEV1FVC 0.800270368 FEV1FVCZ -1.321232873 cd4 430 vload 126 zwauk -2.1326504 zhauk -2.0637655 zbmiuk -1.2426697 vllog 2.1003706 endtreatdate ['2019-02-15T00:00:00', '2019-02-15T00:00:00'] sp05time 09:00:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-08-02T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-08-02T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548273 SAMN22246627 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-03-16 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1191 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 19.3 ethnicity black host_occupation missing host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 23.43541 host_height 74.01101007 samp_size ['2', ''] study_complt_stat withdrawal isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2018-03-12T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 44654 FinalReads_ASVpipeline 18628 sampling_induced_expectorated expectorated barcode BSP0349 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 17171.9 templateDNA_16SqPCR_Cq 23.96116752 templateDNA_16SqPCR 0.012180096 well E09 plate_number P3 barcode_806R 806rcbc269 index_sequence CCATTCGCCCAT DOB 1998-10-30T00:00:00 trial_arm Azithromycin adherence Not Adherent enrolmonth 2018-03 attendschool no rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2011-04-20T00:00:00 datehiv 2011-04-03T00:00:00 ageyart 12.47 duryart 6.9 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.9695979 weight 52.8 f24mrcscore 1 FEV1_baseline 1.8 FEVpcpred 74.01101007 FVC 2.28687501 FVCZ -1.191821712 FVCpcpred 84.26823902 FEV1FVC 0.787100276 FEV1FVCZ -1.648399097 cd4 241 vload 24200 zwauk -0.68499243 zhauk -2.2401826 zbmiuk 0.62569344 vllog 4.3838153 endtreatdate ['2018-04-06T00:00:00', '2018-04-06T00:00:00'] sp05time 08:31:00 all_3 no visit012 no visit1218 no visit018 no only2visits no one_visit yes endfollowup 2018-05-10T00:00:00 dow 43230 dod NA lastvisit 2 wks visittotno 1 lastvisitdate 2018-03-29T00:00:00 treatstopreason By Physician cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548274 SAMN22246698 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-02-15 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1192 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 13.4 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 15.906587 host_height 94.32698019 samp_size ['1.5', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2019-02-15T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 58916 FinalReads_ASVpipeline 21213 sampling_induced_expectorated expectorated barcode BSP0634 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 2558.85 templateDNA_16SqPCR_Cq 26.86 templateDNA_16SqPCR 0.001815 well B01 plate_number P2 barcode_806R 806rcbc105 index_sequence CTTACACCAAGT DOB 2005-08-20T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2018-03 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2007-11-15T00:00:00 datehiv 2006-06-15T00:00:00 ageyart 2.24 duryart 10.33 artdrug1stline no artdrug2ndline yes artreg ATV/LPV/PI fev1z -0.427494648 weight 31.4 f24mrcscore 1 FEV1_baseline 1.830000043 FEVpcpred 94.32698019 FVC 2.2212500569999998 FVCZ 0.131472887 FVCpcpred 101.6328751 FEV1FVC 0.823860437 FEV1FVCZ -1.000921654 cd4 863 vload 380 zwauk -2.2619255 zhauk -2.2109203 zbmiuk -1.3864375 vllog 2.5797837 endtreatdate ['NA', '2019-02-15T00:00:00'] sp05time 09:15:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-08-02T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-08-02T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548275 SAMN22246730 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-08-02 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1192 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 13.9 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 16.174578 host_height 82.4234604 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 72 visit_date 2019-08-02T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 41644 FinalReads_ASVpipeline 12057 sampling_induced_expectorated expectorated barcode BSP0732 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 51317.91 templateDNA_16SqPCR_Cq 22.43 templateDNA_16SqPCR 0.0364 well B02 plate_number P2 barcode_806R 806rcbc113 index_sequence AGTTCCCGAGTA DOB 2005-08-20T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2018-03 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2007-11-15T00:00:00 datehiv 2006-06-15T00:00:00 ageyart 2.24 duryart 10.33 artdrug1stline no artdrug2ndline yes artreg ATV/LPV/PI fev1z -1.30653561 weight 33.4 f24mrcscore 1 FEV1_baseline 1.720000029 FEVpcpred 82.4234604 FVC 2.156874895 FVCZ -0.659867076 FVCpcpred 91.81934841 FEV1FVC 0.797450067 FEV1FVCZ -1.380492212 cd4 NA vload NA zwauk -2.2082589 zhauk -2.2059419 zbmiuk -1.3723751 vllog NA endtreatdate ['NA', '2019-02-15T00:00:00'] sp05time 09:10:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-08-02T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-08-02T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548276 SAMN22246630 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-03-27 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1196 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 15.4 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 16.394773 host_height 63.61621739 samp_size ['2', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2018-03-22T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 38964 FinalReads_ASVpipeline 13792 sampling_induced_expectorated expectorated barcode BSP0360 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 95879.94 templateDNA_16SqPCR_Cq 21.42804503 templateDNA_16SqPCR 0.068008024 well A10 plate_number P4 barcode_806R 806rcbc369 index_sequence TAATGGAGGAAC DOB 2002-10-07T00:00:00 trial_arm Placebo adherence Not Adherent enrolmonth 2018-03 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2014-04-03T00:00:00 datehiv 2014-02-11T00:00:00 ageyart 11.49 duryart 3.98 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -2.7346363 weight 20.2 f24mrcscore 1 FEV1_baseline 0.79 FEVpcpred 63.61621739 FVC 0.916875005 FVCZ -2.353149485 FVCpcpred 69.92585831 FEV1FVC 0.861622377 FEV1FVCZ -1.187518532 cd4 508 vload 48600 zwauk -8.4111643 zhauk -8.4292431 zbmiuk -1.8564818 vllog 4.6866364 endtreatdate ['2019-02-26T00:00:00', '2019-02-26T00:00:00'] sp05time 09:05:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-08-14T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-08-14T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548277 SAMN22246732 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-08-14 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1196 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 16.8 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage NA host_hiv_stat yes host_body_mass_index 16.651623 host_height 70.24178262 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 72 visit_date 2019-08-14T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 41143 FinalReads_ASVpipeline 10976 sampling_induced_expectorated expectorated barcode BSP0739 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 954742.13 templateDNA_16SqPCR_Cq 18.0431709 templateDNA_16SqPCR 0.677 well A12 plate_number P4 barcode_806R 806rcbc0 index_sequence GGAGACAAGGGA DOB 2002-10-07T00:00:00 trial_arm Placebo adherence Not Adherent enrolmonth 2018-03 attendschool yes rs15antibty NA rs14antib no dateart 2014-04-03T00:00:00 datehiv 2014-02-11T00:00:00 ageyart 11.49 duryart 3.98 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -2.25132888 weight 22.6 f24mrcscore 1 FEV1_baseline 0.985000014 FEVpcpred 70.24178262 FVC 1.097499967 FVCZ -2.056237112 FVCpcpred 73.43131314 FEV1FVC 0.897494346 FEV1FVCZ -0.569431048 cd4 NA vload NA zwauk -8.2997341 zhauk -7.7603912 zbmiuk -2.0053532 vllog NA endtreatdate ['NA', '2019-02-26T00:00:00'] sp05time 10:25:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-08-14T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-08-14T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548278 SAMN22246710 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-05-05 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1196 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 16.5 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage NA host_hiv_stat yes host_body_mass_index NA host_height NA samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2019-02-26T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 45514 FinalReads_ASVpipeline 5813 sampling_induced_expectorated expectorated barcode BSP0674 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 889258.99 templateDNA_16SqPCR_Cq 18.14781346 templateDNA_16SqPCR 0.63075494 well A11 plate_number P4 barcode_806R 806rcbc377 index_sequence ACGTGCCGTAGA DOB 2002-10-07T00:00:00 trial_arm Placebo adherence Not Adherent enrolmonth 2018-03 attendschool yes rs15antibty NA rs14antib no dateart 2014-04-03T00:00:00 datehiv 2014-02-11T00:00:00 ageyart 11.49 duryart 3.98 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z NA weight NA f24mrcscore NA FEV1_baseline NA FEVpcpred NA FVC NA FVCZ NA FVCpcpred NA FEV1FVC NA FEV1FVCZ NA cd4 579 vload 6620 zwauk NA zhauk NA zbmiuk NA vllog 3.820858 endtreatdate ['NA', '2019-02-26T00:00:00'] sp05time 09:50:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-08-14T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-08-14T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548279 SAMN22246631 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-03-28 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1197 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 19.5 ethnicity black host_occupation missing host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 17.325996 host_height 75.01526436 samp_size ['2', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2018-03-26T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 34913 FinalReads_ASVpipeline 12543 sampling_induced_expectorated expectorated barcode BSP0361 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 16293.57 templateDNA_16SqPCR_Cq 24.03963229 templateDNA_16SqPCR 0.011557097 well H03 plate_number P3 barcode_806R 806rcbc224 index_sequence GTTACGCATTAC DOB 1998-09-04T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2018-03 attendschool no rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2011-02-15T00:00:00 datehiv 2011-02-01T00:00:00 ageyart 12.45 duryart 7.11 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.9336939 weight 46.6 f24mrcscore 1 FEV1_baseline 2.48 FEVpcpred 75.01526436 FVC 2.956249952 FVCZ -1.77964682 FVCpcpred 77.87979687 FEV1FVC 0.838900654 FEV1FVCZ -0.570965745 cd4 149 vload 13600 zwauk -3.4408443 zhauk -1.9071842 zbmiuk -2.3430009 vllog 4.1335387 endtreatdate ['2019-02-27T00:00:00', '2019-02-27T00:00:00'] sp05time 08:49:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-08-14T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-08-14T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat yes acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548280 SAMN22246699 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-02-27 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1197 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 20.4 ethnicity black host_occupation missing host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 17.924702 host_height 77.17603629 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2019-02-27T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 42619 FinalReads_ASVpipeline 12845 sampling_induced_expectorated expectorated barcode BSP0646 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 2943.8 templateDNA_16SqPCR_Cq 26.59677255 templateDNA_16SqPCR 0.002088052 well H04 plate_number P3 barcode_806R 806rcbc232 index_sequence ATTATACCTCGG DOB 1998-09-04T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2018-03 attendschool no rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2011-02-15T00:00:00 datehiv 2011-02-01T00:00:00 ageyart 12.45 duryart 7.11 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.777211012 weight 48.8 f24mrcscore 1 FEV1_baseline 2.599999905 FEVpcpred 77.17603629 FVC 3.115624905 FVCZ -1.588191384 FVCpcpred 80.22787071 FEV1FVC 0.834503505 FEV1FVCZ -0.583893715 cd4 228 vload 85 zwauk -3.1692903 zhauk -1.7888484 zbmiuk -2.1500013 vllog 1.9294189 endtreatdate ['NA', '2019-02-27T00:00:00'] sp05time 09:05:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-08-14T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-08-14T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat yes acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548281 SAMN22246733 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-08-14 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1197 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 20.9 ethnicity black host_occupation missing host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 17.962597 host_height 76.25869753 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 72 visit_date 2019-08-14T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 46825 FinalReads_ASVpipeline 19696 sampling_induced_expectorated expectorated barcode BSP0740 sequencing_controls no sequencing_control_details NA WRrepeats AAA WRrepeats_WP AAA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 4820.42 templateDNA_16SqPCR_Cq 25.85976351 templateDNA_16SqPCR 0.00342 well H05 plate_number P3 barcode_806R 806rcbc240 index_sequence GGTAGGAACAAT DOB 1998-09-04T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2018-03 attendschool no rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2011-02-15T00:00:00 datehiv 2011-02-01T00:00:00 ageyart 12.45 duryart 7.11 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.847943557 weight 49.2 f24mrcscore 1 FEV1_baseline 2.589999914 FEVpcpred 76.25869753 FVC 3.13499999 FVCZ -1.612070888 FVCpcpred 79.92083446 FEV1FVC 0.826156275 FEV1FVCZ -0.680106339 cd4 NA vload NA zwauk -3.1648452 zhauk -1.7383653 zbmiuk -2.2220862 vllog NA endtreatdate ['NA', '2019-02-27T00:00:00'] sp05time 10:30:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-08-14T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-08-14T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat yes acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548282 SAMN22246595 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2017-08-07 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1103 host_sex male host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 19.4 ethnicity black host_occupation missing host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 21.043516 host_height 82.35288269 samp_size ['2', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2017-08-01T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 52648 FinalReads_ASVpipeline 16598 sampling_induced_expectorated expectorated barcode BSP0137 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 82235.55 templateDNA_16SqPCR_Cq 21.74 templateDNA_16SqPCR 0.05833 well C02 plate_number P1 barcode_806R 806rcbc18 index_sequence CACGCCATAATG DOB 1998-03-09T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2017-08 attendschool no rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2007-03-10T00:00:00 datehiv 2007-03-07T00:00:00 ageyart 9 duryart 10.41 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.3722516 weight 62.4 f24mrcscore 2 FEV1_baseline 3.03 FEVpcpred 82.35288269 FVC 3.56812501 FVCZ -1.308568055 FVCpcpred 83.70871806 FEV1FVC 0.849185486 FEV1FVCZ -0.324324144 cd4 42 vload 1070000 zwauk -0.78114229 zhauk -0.7311936 zbmiuk -0.28318414 vllog 6.0293837 endtreatdate ['2018-07-10T00:00:00', '2018-07-10T00:00:00'] sp05time 10:00:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2018-12-21T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2018-12-21T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548283 SAMN22246632 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-03-28 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1198 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 18.2 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 18.80587 host_height 80.2337305 samp_size ['2', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2018-03-26T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 39107 FinalReads_ASVpipeline 18566 sampling_induced_expectorated expectorated barcode BSP0362 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 3579039.75 templateDNA_16SqPCR_Cq 16.09707378 templateDNA_16SqPCR 2.538627144 well D04 plate_number P4 barcode_806R 806rcbc324 index_sequence ATAGGCGATCTC DOB 1999-12-28T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2018-03 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2016-01-27T00:00:00 datehiv 2016-01-15T00:00:00 ageyart 16.08 duryart 2.17 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -1.5081789 weight 44.6 f24mrcscore 1 FEV1_baseline 2.05 FEVpcpred 80.2337305 FVC 2.168750048 FVCZ -1.82920268 FVCpcpred 76.15327259 FEV1FVC 0.945244914 FEV1FVCZ 0.813853919 cd4 736 vload 45 zwauk -1.9550074 zhauk -1.5889088 zbmiuk -1.0494189 vllog 1.6532125 endtreatdate ['2019-02-27T00:00:00', '2019-02-27T00:00:00'] sp05time 10:01:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-08-14T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-08-14T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548284 SAMN22246734 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-08-14 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1198 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 19.6 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 19.019491 host_height 71.39001578 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 72 visit_date 2019-08-14T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 43160 FinalReads_ASVpipeline 10404 sampling_induced_expectorated expectorated barcode BSP0741 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 225995.64 templateDNA_16SqPCR_Cq 20.16528604 templateDNA_16SqPCR 0.16 well D07 plate_number P4 barcode_806R 806rcbc348 index_sequence AACCTCGTCAAG DOB 1999-12-28T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2018-03 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2016-01-27T00:00:00 datehiv 2016-01-15T00:00:00 ageyart 16.08 duryart 2.17 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -2.162205035 weight 45.4 f24mrcscore 1 FEV1_baseline 1.840000033 FEVpcpred 71.39001578 FVC 2.345624924 FVCZ -1.430750096 FVCpcpred 81.15737586 FEV1FVC 0.784439155 FEV1FVCZ -1.638368683 cd4 NA vload NA zwauk -1.8754896 zhauk -1.5121042 zbmiuk -1.1119828 vllog NA endtreatdate ['NA', '2019-02-27T00:00:00'] sp05time 11:40:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-08-14T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-08-14T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548285 SAMN22246633 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-04-04 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1199 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 16.9 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 23.472033 host_height 61.20561835 samp_size ['2', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2018-03-28T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 41475 FinalReads_ASVpipeline 15272 sampling_induced_expectorated expectorated barcode BSP0366 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 55058.31 templateDNA_16SqPCR_Cq 22.24498233 templateDNA_16SqPCR 0.039053077 well A07 plate_number P4 barcode_806R 806rcbc345 index_sequence TGTGTGTGACTT DOB 2001-04-21T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2018-04 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2014-05-04T00:00:00 datehiv 2003-06-04T00:00:00 ageyart 13.03 duryart 3.92 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -2.9085817 weight 61.6 f24mrcscore 1 FEV1_baseline 1.73 FEVpcpred 61.20561835 FVC 2.289375067 FVCZ -2.130410019 FVCpcpred 72.49080117 FEV1FVC 0.755664742 FEV1FVCZ -2.053624949 cd4 650 vload 131 zwauk 0.55779248 zhauk -0.24858144 zbmiuk 0.87613368 vllog 2.1172712 endtreatdate ['2019-03-06T00:00:00', '2019-03-06T00:00:00'] sp05time 11:15:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-08-21T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-08-21T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548286 SAMN22246700 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-02-27 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1198 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 19.1 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 19.605995 host_height 92.35601471 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2019-02-27T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 50036 FinalReads_ASVpipeline 17385 sampling_induced_expectorated expectorated barcode BSP0647 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 61915.1 templateDNA_16SqPCR_Cq 22.07212438 templateDNA_16SqPCR 0.043916626 well D05 plate_number P4 barcode_806R 806rcbc332 index_sequence CGACATGCTATT DOB 1999-12-28T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2018-03 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2016-01-27T00:00:00 datehiv 2016-01-15T00:00:00 ageyart 16.08 duryart 2.17 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -0.588719268 weight 46.8 f24mrcscore 1 FEV1_baseline 2.380000114 FEVpcpred 92.35601471 FVC 2.726249933 FVCZ -0.411635204 FVCpcpred 94.51680439 FEV1FVC 0.872994103 FEV1FVCZ -0.411023814 cd4 792 vload 412 zwauk -1.6142199 zhauk -1.5116944 zbmiuk -0.78613937 vllog 2.6148973 endtreatdate ['NA', '2019-02-27T00:00:00'] sp05time 10:55:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-08-14T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-08-14T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548287 SAMN22246701 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-03-06 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1199 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 17.8 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 24.285484 host_height 68.60447639 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2019-03-06T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 34657 FinalReads_ASVpipeline 13753 sampling_induced_expectorated expectorated barcode BSP0650 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 238014.81 templateDNA_16SqPCR_Cq 20.08897257 templateDNA_16SqPCR 0.168824855 well A08 plate_number P4 barcode_806R 806rcbc353 index_sequence GACTCACTCAAT DOB 2001-04-21T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2018-04 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2014-05-04T00:00:00 datehiv 2003-06-04T00:00:00 ageyart 13.03 duryart 3.92 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -2.370448009 weight 65 f24mrcscore 1 FEV1_baseline 1.99000001 FEVpcpred 68.60447639 FVC 2.803124905 FVCZ -1.058401993 FVCpcpred 86.0825761 FEV1FVC 0.70992199 FEV1FVCZ -2.485948247 cd4 537 vload 355 zwauk 0.83775955 zhauk 0.005730275 zbmiuk 1.0082335 vllog 2.5502284 endtreatdate ['NA', '2019-03-06T00:00:00'] sp05time 09:20:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-08-21T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-08-21T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548288 SAMN22246735 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-08-21 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1199 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 18.3 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 23.973309 host_height 68.22690701 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 72 visit_date 2019-08-21T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 42210 FinalReads_ASVpipeline 10841 sampling_induced_expectorated expectorated barcode BSP0742 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 29766.06 templateDNA_16SqPCR_Cq 23.15075537 templateDNA_16SqPCR 0.021113186 well A09 plate_number P4 barcode_806R 806rcbc361 index_sequence ACGGCCAATCGA DOB 2001-04-21T00:00:00 trial_arm Placebo adherence Adherent enrolmonth 2018-04 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2014-05-04T00:00:00 datehiv 2003-06-04T00:00:00 ageyart 13.03 duryart 3.92 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -2.397271621 weight 64.4 f24mrcscore 1 FEV1_baseline 1.99000001 FEVpcpred 68.22690701 FVC 2.879374981 FVCZ -0.927983091 FVCpcpred 87.75494563 FEV1FVC 0.691122213 FEV1FVCZ -2.643026533 cd4 NA vload NA zwauk 0.75233793 zhauk 0.049653485 zbmiuk 0.87678725 vllog NA endtreatdate ['NA', '2019-03-06T00:00:00'] sp05time 09:50:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-08-21T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-08-21T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat no acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548289 SAMN22246635 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2018-04-09 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1203 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 12.8 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 14.656776 host_height 60.11787771 samp_size ['2', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 0 visit_date 2018-04-05T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 39815 FinalReads_ASVpipeline 15628 sampling_induced_expectorated expectorated barcode BSP0373 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 260819.74 templateDNA_16SqPCR_Cq 19.89537905 templateDNA_16SqPCR 0.185000482 well F09 plate_number P3 barcode_806R 806rcbc270 index_sequence TACCCAGAGATC DOB 2005-05-25T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2018-04 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2011-12-03T00:00:00 datehiv 2011-11-15T00:00:00 ageyart 6.52 duryart 6.35 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -2.9864876 weight 26.2 f24mrcscore 1 FEV1_baseline 1.03 FEVpcpred 60.11787771 FVC 1.191249967 FVCZ -2.932883483 FVCpcpred 63.42415029 FEV1FVC 0.864637986 FEV1FVCZ -0.787949388 cd4 628 vload 34900 zwauk -3.2652879 zhauk -3.0018992 zbmiuk -2.2082644 vllog 4.5428252 endtreatdate ['2019-03-11T00:00:00', '2019-03-11T00:00:00'] sp05time 10:32:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-08-26T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-08-26T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat yes acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS10548290 SAMN22246702 2517771 human sputum metagenome bioproject 769290 PRJNA769290 collection_date 2019-03-11 env_broad_scale human env_local_scale respiratory tract env_medium sputum geo_loc_name Zimbabwe: Harare host Homo sapiens lat_lon 17.82 S 31.04 E host_subject_id B1203 host_sex female host_tissue_sampled ['human respiratory', 'human respiratory'] host_age 13.7 ethnicity black host_occupation student host_disease HIV-associated chronic lung disease drug_usage COTRIMOXAZOLE host_hiv_stat yes host_body_mass_index 13.328926 host_height 66.77509656 samp_size ['1', ''] study_complt_stat completed 18 months isolation_source sputum pulmonary_disord HIV-associated chronic lung disease samp_mat_process stored in primestore samp_store_temp -80 °C smoker no group trial visit Week 48 visit_date 2019-03-11T00:00:00 run_processing_batch R1 sample_type SP RawReads_ASVpipeline 38063 FinalReads_ASVpipeline 17432 sampling_induced_expectorated expectorated barcode BSP0656 sequencing_controls no sequencing_control_details NA WRrepeats NA WRrepeats_WP NA WRrepeats_BP NA BRrepeats NA EXrepeats NA nontemplate NA primestore_detail NA mock NA sample_extraction_controls no zymo_DNA no templateDNA_16SqPCR_copies 844667.32 templateDNA_16SqPCR_Cq 18.13920736 templateDNA_16SqPCR 0.599125891 well F10 plate_number P3 barcode_806R 806rcbc278 index_sequence CAACGGGTAGTC DOB 2005-05-25T00:00:00 trial_arm Azithromycin adherence Adherent enrolmonth 2018-04 attendschool yes rs15antibty COTRIMOXAZOLE rs14antib yes dateart 2011-12-03T00:00:00 datehiv 2011-11-15T00:00:00 ageyart 6.52 duryart 6.35 artdrug1stline yes artdrug2ndline no artreg EFV/NVP fev1z -2.50458947 weight 25.2 f24mrcscore 1 FEV1_baseline 1.25 FEVpcpred 66.77509656 FVC 1.358749986 FVCZ -2.667518499 FVCpcpred 66.39892185 FEV1FVC 0.919963211 FEV1FVCZ 0.116050865 cd4 684 vload 39 zwauk -4.4707289 zhauk -3.2245247 zbmiuk -3.6427934 vllog 1.5910646 endtreatdate ['NA', '2019-03-11T00:00:00'] sp05time 10:25:00 all_3 yes visit012 yes visit1218 yes visit018 yes only2visits no one_visit no endfollowup 2019-08-26T00:00:00 dow NA dod NA lastvisit 18 mths visittotno 7 lastvisitdate 2019-08-26T00:00:00 treatstopreason Completed cough_enrl no cotrimoxazole yes adm no nadm NA tbtreat yes acut_exac12m no hospitalised12m no reason_hospi no antibiotic12m no any3_reasons 0 BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated