SRS1593414 SAMN05441210 646099 human metagenome 004_CLN collection_date 2014-04-17 env_biome Skin Tissue env_feature Skin Tissue env_material Skin Tissue geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/22/2014 Custom_Index GCTAAGAGAGTA Data_Collection_Vers MCS_v2.4.1.3 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-A9KF5 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.3.32 Run_Folder 140722_M00738_0001_000000000-A9KF5 Sample_Concentration 0.22 Sample_Volume 100 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 1 Sequencing_Run_Type MiSeq_PEIn_300_Run Pool_Name NO_INPUT batch 1 Age 60 BMI 34.7 Body_weight_kg 85 Weight_category 2 Smoker_status Former_smoker Or_if_exact_date_unknown_choose _6_weeks Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 2 Parity 2 Year_of_last_parity NO_INPUT Breastfed_ever Yes How_long_breastfed_cumulative One_year_or_more Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer 2nd_degree_or_greater_relative Preoperative_diagnosis DCIS If_other_please_specify_2 NO_INPUT Date_of_surgery 4/17/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 2000 abx_time 11_20_00 incision_time 11_45_00 closure_time 13_57_00 specimen_time 12_20_00 time_from_incision_to_specimen 35 Distance_of_specimen_from_nipple 6 dfn_cat __5_cm Breast_operation WLE Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Malignant Final_pathology_histology_ DCIS Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage Tis Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage 0 ER_status _75_ PR_status _75_ HER2 N/A HER2_FISH Not_Performed Invasive_Grade NO_INPUT Grade_for_DCIS Low Age_menopause 49 years_since_menopause 11 days_since_last_period NO_INPUT days_biop_to_surg 36 min_abx_to_specimen 60 erpos 1 prpos 1 Final_histology_more_detail DCIS BBD_Category NO_INPUT bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 55-64 agecat_2 56_ simple_id 4 histology_cat DCIS t2specimen_cat 31-60min bmi_cat 30_ her2pos NO_INPUT any_children 1 enrolltime 1 histology_cat2 DCIS BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593416 SAMN05441213 646099 human metagenome 005_JJK collection_date 2014-04-21 env_biome Skin Swab env_feature Skin Swab env_material Skin Swab geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 2/13/2015 Custom_Index TGGTAGGTACCG Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-ADTR5 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150213_M00738_0017_000000000-ADTR5 Sample_Concentration 65 Sample_Volume 50 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 17 Sequencing_Run_Type MiSeq_PEIn_300_Run Pool_Name NO_INPUT batch 2 Age 75 BMI 26.7 Body_weight_kg 66.3 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 5 Parity 2 Year_of_last_parity NO_INPUT Breastfed_ever No How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer 1_first_degree_relative Preoperative_diagnosis IDC If_other_please_specify_2 NO_INPUT Date_of_surgery 4/21/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 11_26_00 incision_time 12_01_00 closure_time 14_27_00 specimen_time 12_55_00 time_from_incision_to_specimen 54 Distance_of_specimen_from_nipple 4 dfn_cat __2_but_within_5 Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 5 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ IMC Secondary_Pathology_associated_ DCIS If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T2 Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IIA ER_status _75_ PR_status 51-75_ HER2 0 HER2_FISH Not_Performed Invasive_Grade II Grade_for_DCIS NO_INPUT Age_menopause 52 years_since_menopause 23 days_since_last_period NO_INPUT days_biop_to_surg 31 min_abx_to_specimen 89 erpos 1 prpos 1 Final_histology_more_detail IMC BBD_Category NO_INPUT bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 75_ agecat_2 56_ simple_id 5 histology_cat InvCa t2specimen_cat 31-60min bmi_cat 25-29.9 her2pos 0 any_children 1 enrolltime 1 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593403 SAMN05441200 646099 human metagenome 001_LSK collection_date 2014-04-07 env_biome Breast env_feature Breast env_material Breast geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/22/2014 Custom_Index CGCGTAACTGTA Data_Collection_Vers MCS_v2.4.1.3 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-A9MD5 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.3.32 Run_Folder 140722_M00710_0163_000000000-A9MD5 Sample_Concentration 3.69 Sample_Volume 100 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 163 Sequencing_Run_Type MiSeq_PEIn_300_Run Pool_Name NO_INPUT batch 1 Age 57 BMI 25 Body_weight_kg 61.5 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 2 Parity 2 Year_of_last_parity NO_INPUT Breastfed_ever Yes How_long_breastfed_cumulative _1_year Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis ADH If_other_please_specify_2 NO_INPUT Date_of_surgery 4/7/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Clindamycin Preop_antibiotic_dose_mg 600 abx_time 8_46_00 incision_time 9_19_00 closure_time 10_44_00 specimen_time 10_13_00 time_from_incision_to_specimen 54 Distance_of_specimen_from_nipple 7 dfn_cat __5_cm Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ ADH Secondary_Pathology_associated_ NO_INPUT If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause 56 years_since_menopause 1 days_since_last_period NO_INPUT days_biop_to_surg 52 min_abx_to_specimen 87 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail ADH BBD_Category Atypia bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 55-64 agecat_2 56_ simple_id 1 histology_cat Atypia t2specimen_cat 31-60min bmi_cat 25-29.9 her2pos NO_INPUT any_children 1 enrolltime 1 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593413 SAMN05441201 646099 human metagenome 001_LSK collection_date 2014-04-04 env_biome Buccal Cells env_feature Buccal Cells env_material Buccal Cells geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/22/2014 Custom_Index CAGTGATCCTAG Data_Collection_Vers MCS_v2.4.1.3 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-A9MD5 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.3.32 Run_Folder 140722_M00710_0163_000000000-A9MD5 Sample_Concentration 3.69 Sample_Volume 100 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 163 Sequencing_Run_Type MiSeq_PEIn_300_Run Pool_Name NO_INPUT batch 1 Age 57 BMI 25 Body_weight_kg 61.5 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 2 Parity 2 Year_of_last_parity NO_INPUT Breastfed_ever Yes How_long_breastfed_cumulative _1_year Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis ADH If_other_please_specify_2 NO_INPUT Date_of_surgery 4/7/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Clindamycin Preop_antibiotic_dose_mg 600 abx_time 8_46_00 incision_time 9_19_00 closure_time 10_44_00 specimen_time 10_13_00 time_from_incision_to_specimen 54 Distance_of_specimen_from_nipple 7 dfn_cat __5_cm Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ ADH Secondary_Pathology_associated_ NO_INPUT If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause 56 years_since_menopause 1 days_since_last_period NO_INPUT days_biop_to_surg 52 min_abx_to_specimen 87 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail ADH BBD_Category Atypia bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 55-64 agecat_2 56_ simple_id 1 histology_cat Atypia t2specimen_cat 31-60min bmi_cat 25-29.9 her2pos NO_INPUT any_children 1 enrolltime 1 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593415 SAMN05441211 646099 human metagenome 005_JJK collection_date 2014-04-21 env_biome Breast env_feature Breast env_material Breast geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/22/2014 Custom_Index GGAAAGTCGAAG Data_Collection_Vers MCS_v2.4.1.3 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-A9MD5 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.3.32 Run_Folder 140722_M00710_0163_000000000-A9MD5 Sample_Concentration 3.69 Sample_Volume 100 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 163 Sequencing_Run_Type MiSeq_PEIn_300_Run Pool_Name NO_INPUT batch 1 Age 75 BMI 26.7 Body_weight_kg 66.3 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 5 Parity 2 Year_of_last_parity NO_INPUT Breastfed_ever No How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer 1_first_degree_relative Preoperative_diagnosis IDC If_other_please_specify_2 NO_INPUT Date_of_surgery 4/21/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 11_26_00 incision_time 12_01_00 closure_time 14_27_00 specimen_time 12_55_00 time_from_incision_to_specimen 54 Distance_of_specimen_from_nipple 4 dfn_cat __2_but_within_5 Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 5 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ IMC Secondary_Pathology_associated_ DCIS If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T2 Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IIA ER_status _75_ PR_status 51-75_ HER2 0 HER2_FISH Not_Performed Invasive_Grade II Grade_for_DCIS NO_INPUT Age_menopause 52 years_since_menopause 23 days_since_last_period NO_INPUT days_biop_to_surg 31 min_abx_to_specimen 89 erpos 1 prpos 1 Final_histology_more_detail IMC BBD_Category NO_INPUT bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 75_ agecat_2 56_ simple_id 5 histology_cat InvCa t2specimen_cat 31-60min bmi_cat 25-29.9 her2pos 0 any_children 1 enrolltime 1 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593417 SAMN05441212 646099 human metagenome 005_JJK collection_date 2014-04-16 env_biome Buccal Cells env_feature Buccal Cells env_material Buccal Cells geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/22/2014 Custom_Index GCAAGCCGATTG Data_Collection_Vers MCS_v2.4.1.3 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-A9MD5 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.3.32 Run_Folder 140722_M00710_0163_000000000-A9MD5 Sample_Concentration 3.69 Sample_Volume 100 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 163 Sequencing_Run_Type MiSeq_PEIn_300_Run Pool_Name NO_INPUT batch 1 Age 75 BMI 26.7 Body_weight_kg 66.3 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 5 Parity 2 Year_of_last_parity NO_INPUT Breastfed_ever No How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer 1_first_degree_relative Preoperative_diagnosis IDC If_other_please_specify_2 NO_INPUT Date_of_surgery 4/21/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 11_26_00 incision_time 12_01_00 closure_time 14_27_00 specimen_time 12_55_00 time_from_incision_to_specimen 54 Distance_of_specimen_from_nipple 4 dfn_cat __2_but_within_5 Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 5 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ IMC Secondary_Pathology_associated_ DCIS If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T2 Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IIA ER_status _75_ PR_status 51-75_ HER2 0 HER2_FISH Not_Performed Invasive_Grade II Grade_for_DCIS NO_INPUT Age_menopause 52 years_since_menopause 23 days_since_last_period NO_INPUT days_biop_to_surg 31 min_abx_to_specimen 89 erpos 1 prpos 1 Final_histology_more_detail IMC BBD_Category NO_INPUT bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 75_ agecat_2 56_ simple_id 5 histology_cat InvCa t2specimen_cat 31-60min bmi_cat 25-29.9 her2pos 0 any_children 1 enrolltime 1 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593418 SAMN05441214 646099 human metagenome 005_JJK collection_date 2014-04-21 env_biome Skin Tissue env_feature Skin Tissue env_material Skin Tissue geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/22/2014 Custom_Index GCGCGAACAGTT Data_Collection_Vers MCS_v2.4.1.3 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-A9KF5 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.3.32 Run_Folder 140722_M00738_0001_000000000-A9KF5 Sample_Concentration 0.22 Sample_Volume 100 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 1 Sequencing_Run_Type MiSeq_PEIn_300_Run Pool_Name NO_INPUT batch 1 Age 75 BMI 26.7 Body_weight_kg 66.3 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 5 Parity 2 Year_of_last_parity NO_INPUT Breastfed_ever No How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer 1_first_degree_relative Preoperative_diagnosis IDC If_other_please_specify_2 NO_INPUT Date_of_surgery 4/21/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 11_26_00 incision_time 12_01_00 closure_time 14_27_00 specimen_time 12_55_00 time_from_incision_to_specimen 54 Distance_of_specimen_from_nipple 4 dfn_cat __2_but_within_5 Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 5 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ IMC Secondary_Pathology_associated_ DCIS If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T2 Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IIA ER_status _75_ PR_status 51-75_ HER2 0 HER2_FISH Not_Performed Invasive_Grade II Grade_for_DCIS NO_INPUT Age_menopause 52 years_since_menopause 23 days_since_last_period NO_INPUT days_biop_to_surg 31 min_abx_to_specimen 89 erpos 1 prpos 1 Final_histology_more_detail IMC BBD_Category NO_INPUT bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 75_ agecat_2 56_ simple_id 5 histology_cat InvCa t2specimen_cat 31-60min bmi_cat 25-29.9 her2pos 0 any_children 1 enrolltime 1 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593419 SAMN05441216 646099 human metagenome 006_DLB collection_date 2014-04-16 env_biome Buccal Cells env_feature Buccal Cells env_material Buccal Cells geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/22/2014 Custom_Index CGATCGAGTGTT Data_Collection_Vers MCS_v2.4.1.3 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-A9MD5 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.3.32 Run_Folder 140722_M00710_0163_000000000-A9MD5 Sample_Concentration 3.69 Sample_Volume 100 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 163 Sequencing_Run_Type MiSeq_PEIn_300_Run Pool_Name NO_INPUT batch 1 Age 70 BMI 25.5 Body_weight_kg 66 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 4 Parity 4 Year_of_last_parity NO_INPUT Breastfed_ever No How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer 1_first_degree_relative Preoperative_diagnosis Papillary_lesion_w/o_atypia If_other_please_specify_2 NO_INPUT Date_of_surgery 5/5/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 15_12_00 incision_time 15_25_00 closure_time 16_19_00 specimen_time 15_55_00 time_from_incision_to_specimen 30 Distance_of_specimen_from_nipple 4 dfn_cat __2_but_within_5 Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ Papillary_lesion_w/o_atypia Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period NO_INPUT days_biop_to_surg 95 min_abx_to_specimen 43 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail Papillary_lesion_w/o_atypia BBD_Category PD bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 65-74 agecat_2 56_ simple_id 6 histology_cat BBD_non_atypia t2specimen_cat 22-30min bmi_cat 25-29.9 her2pos NO_INPUT any_children 1 enrolltime 1 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593420 SAMN05441215 646099 human metagenome 006_DLB collection_date 2014-05-05 env_biome Breast env_feature Breast env_material Breast geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/22/2014 Custom_Index GGTTCTTATGAC Data_Collection_Vers MCS_v2.4.1.3 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-A9MD5 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.3.32 Run_Folder 140722_M00710_0163_000000000-A9MD5 Sample_Concentration 3.69 Sample_Volume 100 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 163 Sequencing_Run_Type MiSeq_PEIn_300_Run Pool_Name NO_INPUT batch 1 Age 70 BMI 25.5 Body_weight_kg 66 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 4 Parity 4 Year_of_last_parity NO_INPUT Breastfed_ever No How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer 1_first_degree_relative Preoperative_diagnosis Papillary_lesion_w/o_atypia If_other_please_specify_2 NO_INPUT Date_of_surgery 5/5/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 15_12_00 incision_time 15_25_00 closure_time 16_19_00 specimen_time 15_55_00 time_from_incision_to_specimen 30 Distance_of_specimen_from_nipple 4 dfn_cat __2_but_within_5 Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ Papillary_lesion_w/o_atypia Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period NO_INPUT days_biop_to_surg 95 min_abx_to_specimen 43 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail Papillary_lesion_w/o_atypia BBD_Category PD bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 65-74 agecat_2 56_ simple_id 6 histology_cat BBD_non_atypia t2specimen_cat 22-30min bmi_cat 25-29.9 her2pos NO_INPUT any_children 1 enrolltime 1 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593421 SAMN05441217 646099 human metagenome 006_DLB collection_date 2014-05-05 env_biome Skin Swab env_feature Skin Swab env_material Skin Swab geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 2/10/2015 Custom_Index GCTAGCAAACGC Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-ACWFJ Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150210_M00738_0016_000000000-ACWFJ Sample_Concentration 13.5 Sample_Volume 50 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 16 Sequencing_Run_Type MiSeq_PEIn_300_Run Pool_Name NO_INPUT batch 2 Age 70 BMI 25.5 Body_weight_kg 66 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 4 Parity 4 Year_of_last_parity NO_INPUT Breastfed_ever No How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer 1_first_degree_relative Preoperative_diagnosis Papillary_lesion_w/o_atypia If_other_please_specify_2 NO_INPUT Date_of_surgery 5/5/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 15_12_00 incision_time 15_25_00 closure_time 16_19_00 specimen_time 15_55_00 time_from_incision_to_specimen 30 Distance_of_specimen_from_nipple 4 dfn_cat __2_but_within_5 Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ Papillary_lesion_w/o_atypia Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period NO_INPUT days_biop_to_surg 95 min_abx_to_specimen 43 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail Papillary_lesion_w/o_atypia BBD_Category PD bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 65-74 agecat_2 56_ simple_id 6 histology_cat BBD_non_atypia t2specimen_cat 22-30min bmi_cat 25-29.9 her2pos NO_INPUT any_children 1 enrolltime 1 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593422 SAMN05441218 646099 human metagenome 006_DLB collection_date 2014-05-05 env_biome Skin Tissue env_feature Skin Tissue env_material Skin Tissue geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/22/2014 Custom_Index GTAGATGCTTCG Data_Collection_Vers MCS_v2.4.1.3 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-A9KF5 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.3.32 Run_Folder 140722_M00738_0001_000000000-A9KF5 Sample_Concentration 0.22 Sample_Volume 100 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 1 Sequencing_Run_Type MiSeq_PEIn_300_Run Pool_Name NO_INPUT batch 1 Age 70 BMI 25.5 Body_weight_kg 66 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 4 Parity 4 Year_of_last_parity NO_INPUT Breastfed_ever No How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer 1_first_degree_relative Preoperative_diagnosis Papillary_lesion_w/o_atypia If_other_please_specify_2 NO_INPUT Date_of_surgery 5/5/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 15_12_00 incision_time 15_25_00 closure_time 16_19_00 specimen_time 15_55_00 time_from_incision_to_specimen 30 Distance_of_specimen_from_nipple 4 dfn_cat __2_but_within_5 Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ Papillary_lesion_w/o_atypia Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period NO_INPUT days_biop_to_surg 95 min_abx_to_specimen 43 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail Papillary_lesion_w/o_atypia BBD_Category PD bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 65-74 agecat_2 56_ simple_id 6 histology_cat BBD_non_atypia t2specimen_cat 22-30min bmi_cat 25-29.9 her2pos NO_INPUT any_children 1 enrolltime 1 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593423 SAMN05441219 646099 human metagenome 008_KAE collection_date 2014-05-09 env_biome Breast env_feature Breast env_material Breast geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/22/2014 Custom_Index GAGAGCTCTACG Data_Collection_Vers MCS_v2.4.1.3 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-A9MD5 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.3.32 Run_Folder 140722_M00710_0163_000000000-A9MD5 Sample_Concentration 3.69 Sample_Volume 100 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 163 Sequencing_Run_Type MiSeq_PEIn_300_Run Pool_Name NO_INPUT batch 1 Age 59 BMI 26.7 Body_weight_kg 80.5 Weight_category 2 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus Yes_NIDDM ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 2 Parity 2 Year_of_last_parity NO_INPUT Breastfed_ever No How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis IMC If_other_please_specify_2 NO_INPUT Date_of_surgery 5/9/2014 Preoperative_Hibiclens_wash_doc Yes Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 2000 abx_time 12_40_00 incision_time 12_52_00 closure_time 14_38_00 specimen_time 14_02_00 time_from_incision_to_specimen 70 Distance_of_specimen_from_nipple 7 dfn_cat __5_cm Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 1 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1c Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IA ER_status _75_ PR_status 26-50_ HER2 1_ HER2_FISH Not_Performed Invasive_Grade I Grade_for_DCIS NO_INPUT Age_menopause 56 years_since_menopause 3 days_since_last_period NO_INPUT days_biop_to_surg 24 min_abx_to_specimen 82 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 0 dist_nipple_gt2 1 agecat_1 55-64 agecat_2 56_ simple_id 8 histology_cat InvCa t2specimen_cat 61-90min bmi_cat 25-29.9 her2pos 0 any_children 1 enrolltime 1 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593424 SAMN05441202 646099 human metagenome 001_LSK collection_date 2014-04-07 env_biome Skin Tissue env_feature Skin Tissue env_material Skin Tissue geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/22/2014 Custom_Index GATGATCGCCGA Data_Collection_Vers MCS_v2.4.1.3 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-A9KF5 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.3.32 Run_Folder 140722_M00738_0001_000000000-A9KF5 Sample_Concentration 0.22 Sample_Volume 100 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 1 Sequencing_Run_Type MiSeq_PEIn_300_Run Pool_Name NO_INPUT batch 1 Age 57 BMI 25 Body_weight_kg 61.5 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 2 Parity 2 Year_of_last_parity NO_INPUT Breastfed_ever Yes How_long_breastfed_cumulative _1_year Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis ADH If_other_please_specify_2 NO_INPUT Date_of_surgery 4/7/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Clindamycin Preop_antibiotic_dose_mg 600 abx_time 8_46_00 incision_time 9_19_00 closure_time 10_44_00 specimen_time 10_13_00 time_from_incision_to_specimen 54 Distance_of_specimen_from_nipple 7 dfn_cat __5_cm Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ ADH Secondary_Pathology_associated_ NO_INPUT If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause 56 years_since_menopause 1 days_since_last_period NO_INPUT days_biop_to_surg 52 min_abx_to_specimen 87 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail ADH BBD_Category Atypia bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 55-64 agecat_2 56_ simple_id 1 histology_cat Atypia t2specimen_cat 31-60min bmi_cat 25-29.9 her2pos NO_INPUT any_children 1 enrolltime 1 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593425 SAMN05441220 646099 human metagenome 008_KAE collection_date 2014-05-06 env_biome Buccal Cells env_feature Buccal Cells env_material Buccal Cells geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/22/2014 Custom_Index TATTGCTCCTCC Data_Collection_Vers MCS_v2.4.1.3 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-A9MD5 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.3.32 Run_Folder 140722_M00710_0163_000000000-A9MD5 Sample_Concentration 3.69 Sample_Volume 100 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 163 Sequencing_Run_Type MiSeq_PEIn_300_Run Pool_Name NO_INPUT batch 1 Age 59 BMI 26.7 Body_weight_kg 80.5 Weight_category 2 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus Yes_NIDDM ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 2 Parity 2 Year_of_last_parity NO_INPUT Breastfed_ever No How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis IMC If_other_please_specify_2 NO_INPUT Date_of_surgery 5/9/2014 Preoperative_Hibiclens_wash_doc Yes Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 2000 abx_time 12_40_00 incision_time 12_52_00 closure_time 14_38_00 specimen_time 14_02_00 time_from_incision_to_specimen 70 Distance_of_specimen_from_nipple 7 dfn_cat __5_cm Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 1 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1c Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IA ER_status _75_ PR_status 26-50_ HER2 1_ HER2_FISH Not_Performed Invasive_Grade I Grade_for_DCIS NO_INPUT Age_menopause 56 years_since_menopause 3 days_since_last_period NO_INPUT days_biop_to_surg 24 min_abx_to_specimen 82 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 0 dist_nipple_gt2 1 agecat_1 55-64 agecat_2 56_ simple_id 8 histology_cat InvCa t2specimen_cat 61-90min bmi_cat 25-29.9 her2pos 0 any_children 1 enrolltime 1 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593426 SAMN05441221 646099 human metagenome 008_KAE collection_date 2014-05-09 env_biome Skin Swab env_feature Skin Swab env_material Skin Swab geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 2/13/2015 Custom_Index TCTGAGTCTGAG Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-ADTR5 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150213_M00738_0017_000000000-ADTR5 Sample_Concentration 65 Sample_Volume 50 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 17 Sequencing_Run_Type MiSeq_PEIn_300_Run Pool_Name NO_INPUT batch 2 Age 59 BMI 26.7 Body_weight_kg 80.5 Weight_category 2 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus Yes_NIDDM ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 2 Parity 2 Year_of_last_parity NO_INPUT Breastfed_ever No How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis IMC If_other_please_specify_2 NO_INPUT Date_of_surgery 5/9/2014 Preoperative_Hibiclens_wash_doc Yes Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 2000 abx_time 12_40_00 incision_time 12_52_00 closure_time 14_38_00 specimen_time 14_02_00 time_from_incision_to_specimen 70 Distance_of_specimen_from_nipple 7 dfn_cat __5_cm Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 1 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1c Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IA ER_status _75_ PR_status 26-50_ HER2 1_ HER2_FISH Not_Performed Invasive_Grade I Grade_for_DCIS NO_INPUT Age_menopause 56 years_since_menopause 3 days_since_last_period NO_INPUT days_biop_to_surg 24 min_abx_to_specimen 82 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 0 dist_nipple_gt2 1 agecat_1 55-64 agecat_2 56_ simple_id 8 histology_cat InvCa t2specimen_cat 61-90min bmi_cat 25-29.9 her2pos 0 any_children 1 enrolltime 1 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593427 SAMN05441222 646099 human metagenome 008_KAE collection_date 2014-05-09 env_biome Skin Tissue env_feature Skin Tissue env_material Skin Tissue geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/22/2014 Custom_Index TGGGCAACCTGA Data_Collection_Vers MCS_v2.4.1.3 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-A9KF5 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.3.32 Run_Folder 140722_M00738_0001_000000000-A9KF5 Sample_Concentration 0.22 Sample_Volume 100 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 1 Sequencing_Run_Type MiSeq_PEIn_300_Run Pool_Name NO_INPUT batch 1 Age 59 BMI 26.7 Body_weight_kg 80.5 Weight_category 2 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus Yes_NIDDM ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 2 Parity 2 Year_of_last_parity NO_INPUT Breastfed_ever No How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis IMC If_other_please_specify_2 NO_INPUT Date_of_surgery 5/9/2014 Preoperative_Hibiclens_wash_doc Yes Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 2000 abx_time 12_40_00 incision_time 12_52_00 closure_time 14_38_00 specimen_time 14_02_00 time_from_incision_to_specimen 70 Distance_of_specimen_from_nipple 7 dfn_cat __5_cm Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 1 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1c Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IA ER_status _75_ PR_status 26-50_ HER2 1_ HER2_FISH Not_Performed Invasive_Grade I Grade_for_DCIS NO_INPUT Age_menopause 56 years_since_menopause 3 days_since_last_period NO_INPUT days_biop_to_surg 24 min_abx_to_specimen 82 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 0 dist_nipple_gt2 1 agecat_1 55-64 agecat_2 56_ simple_id 8 histology_cat InvCa t2specimen_cat 61-90min bmi_cat 25-29.9 her2pos 0 any_children 1 enrolltime 1 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593428 SAMN05441223 646099 human metagenome 009_LXA collection_date 2014-05-08 env_biome Breast env_feature Breast env_material Breast geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/22/2014 Custom_Index TAACTTGCGGAC Data_Collection_Vers MCS_v2.4.1.3 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-A9MD5 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.3.32 Run_Folder 140722_M00710_0163_000000000-A9MD5 Sample_Concentration 3.69 Sample_Volume 100 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 163 Sequencing_Run_Type MiSeq_PEIn_300_Run Pool_Name NO_INPUT batch 1 Age 77 BMI 27.7 Body_weight_kg 67.6 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery Yes Gravidity 5 Parity 3 Year_of_last_parity NO_INPUT Breastfed_ever Yes How_long_breastfed_cumulative _1_year Menopausal_status Post-menopause Neoadjuvant_therapy Yes_neoadj_chemotherapy Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis ILC If_other_please_specify_2 NO_INPUT Date_of_surgery 5/8/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 11_51_00 incision_time 12_06_00 closure_time 14_45_00 specimen_time 13_44_00 time_from_incision_to_specimen 98 Distance_of_specimen_from_nipple 11.5 dfn_cat __5_cm Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 4 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ ILC Secondary_Pathology_associated_ LCIS If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1a Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IA ER_status _75_ PR_status 1-10_ HER2 2_ HER2_FISH Amplified Invasive_Grade I Grade_for_DCIS NO_INPUT Age_menopause 50 years_since_menopause 27 days_since_last_period NO_INPUT days_biop_to_surg 238 min_abx_to_specimen 113 erpos 1 prpos 1 Final_histology_more_detail ILC BBD_Category NO_INPUT bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 75_ agecat_2 56_ simple_id 9 histology_cat InvCa t2specimen_cat 91-120mi bmi_cat 25-29.9 her2pos 1 any_children 1 enrolltime 1 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593429 SAMN05441225 646099 human metagenome 009_LXA collection_date 2014-05-08 env_biome Skin Swab env_feature Skin Swab env_material Skin Swab geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/2/2015 Custom_Index AGTCCATAGCTG Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AFV88 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150702_M00710_0038_000000000-AFV88 Sample_Concentration 0.9 Sample_Volume 50 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 38 Sequencing_Run_Type MiSeq_PE_300_Run Pool_Name Hieken1_060815 batch 3 Age 77 BMI 27.7 Body_weight_kg 67.6 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery Yes Gravidity 5 Parity 3 Year_of_last_parity NO_INPUT Breastfed_ever Yes How_long_breastfed_cumulative _1_year Menopausal_status Post-menopause Neoadjuvant_therapy Yes_neoadj_chemotherapy Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis ILC If_other_please_specify_2 NO_INPUT Date_of_surgery 5/8/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 11_51_00 incision_time 12_06_00 closure_time 14_45_00 specimen_time 13_44_00 time_from_incision_to_specimen 98 Distance_of_specimen_from_nipple 11.5 dfn_cat __5_cm Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 4 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ ILC Secondary_Pathology_associated_ LCIS If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1a Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IA ER_status _75_ PR_status 1-10_ HER2 2_ HER2_FISH Amplified Invasive_Grade I Grade_for_DCIS NO_INPUT Age_menopause 50 years_since_menopause 27 days_since_last_period NO_INPUT days_biop_to_surg 238 min_abx_to_specimen 113 erpos 1 prpos 1 Final_histology_more_detail ILC BBD_Category NO_INPUT bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 75_ agecat_2 56_ simple_id 9 histology_cat InvCa t2specimen_cat 91-120mi bmi_cat 25-29.9 her2pos 1 any_children 1 enrolltime 1 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593430 SAMN05441224 646099 human metagenome 009_LXA collection_date 2014-05-07 env_biome Buccal Cells env_feature Buccal Cells env_material Buccal Cells geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 77 BMI 27.7 Body_weight_kg 67.6 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery Yes Gravidity 5 Parity 3 Year_of_last_parity NO_INPUT Breastfed_ever Yes How_long_breastfed_cumulative _1_year Menopausal_status Post-menopause Neoadjuvant_therapy Yes_neoadj_chemotherapy Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis ILC If_other_please_specify_2 NO_INPUT Date_of_surgery 5/8/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 11_51_00 incision_time 12_06_00 closure_time 14_45_00 specimen_time 13_44_00 time_from_incision_to_specimen 98 Distance_of_specimen_from_nipple 11.5 dfn_cat __5_cm Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 4 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ ILC Secondary_Pathology_associated_ LCIS If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1a Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IA ER_status _75_ PR_status 1-10_ HER2 2_ HER2_FISH Amplified Invasive_Grade I Grade_for_DCIS NO_INPUT Age_menopause 50 years_since_menopause 27 days_since_last_period NO_INPUT days_biop_to_surg 238 min_abx_to_specimen 113 erpos 1 prpos 1 Final_histology_more_detail ILC BBD_Category NO_INPUT bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 75_ agecat_2 56_ simple_id 9 histology_cat InvCa t2specimen_cat 91-120mi bmi_cat 25-29.9 her2pos 1 any_children 1 enrolltime 1 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593431 SAMN05441226 646099 human metagenome 011_DLB collection_date 2014-05-13 env_biome Breast env_feature Breast env_material Breast geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/22/2014 Custom_Index AGCTCTCAGAGG Data_Collection_Vers MCS_v2.4.1.3 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-A9MD5 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.3.32 Run_Folder 140722_M00710_0163_000000000-A9MD5 Sample_Concentration 3.69 Sample_Volume 100 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 163 Sequencing_Run_Type MiSeq_PEIn_300_Run Pool_Name NO_INPUT batch 1 Age 61 BMI 27.98 Body_weight_kg 77 Weight_category 1 Smoker_status Former_smoker Or_if_exact_date_unknown_choose _6_weeks Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 1 Parity 1 Year_of_last_parity NO_INPUT Breastfed_ever Yes How_long_breastfed_cumulative _1_year Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis Papillary_lesion_w/o_atypia If_other_please_specify_2 NO_INPUT Date_of_surgery 5/13/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 2000 abx_time 13_22_00 incision_time 13_41_00 closure_time 15_14_00 specimen_time 14_23_00 time_from_incision_to_specimen 42 Distance_of_specimen_from_nipple 5 dfn_cat __2_but_within_5 Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ Papillary_lesion_w/o_atypia Secondary_Pathology_associated_ NO_INPUT If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause 44 years_since_menopause 17 days_since_last_period NO_INPUT days_biop_to_surg 18 min_abx_to_specimen 61 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail Papillary_lesion_w/o_atypia BBD_Category PD bxtosx_gt28days 0 dist_nipple_gt2 1 agecat_1 55-64 agecat_2 56_ simple_id 11 histology_cat BBD_non_atypia t2specimen_cat 31-60min bmi_cat 25-29.9 her2pos NO_INPUT any_children 1 enrolltime 2 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593432 SAMN05441228 646099 human metagenome 011_DLB collection_date 2014-05-13 env_biome Skin Swab env_feature Skin Swab env_material Skin Swab geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 2/13/2015 Custom_Index GCAGTTCATATC Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-ADTR5 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150213_M00738_0017_000000000-ADTR5 Sample_Concentration 65 Sample_Volume 50 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 17 Sequencing_Run_Type MiSeq_PEIn_300_Run Pool_Name NO_INPUT batch 2 Age 61 BMI 27.98 Body_weight_kg 77 Weight_category 1 Smoker_status Former_smoker Or_if_exact_date_unknown_choose _6_weeks Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 1 Parity 1 Year_of_last_parity NO_INPUT Breastfed_ever Yes How_long_breastfed_cumulative _1_year Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis Papillary_lesion_w/o_atypia If_other_please_specify_2 NO_INPUT Date_of_surgery 5/13/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 2000 abx_time 13_22_00 incision_time 13_41_00 closure_time 15_14_00 specimen_time 14_23_00 time_from_incision_to_specimen 42 Distance_of_specimen_from_nipple 5 dfn_cat __2_but_within_5 Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ Papillary_lesion_w/o_atypia Secondary_Pathology_associated_ NO_INPUT If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause 44 years_since_menopause 17 days_since_last_period NO_INPUT days_biop_to_surg 18 min_abx_to_specimen 61 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail Papillary_lesion_w/o_atypia BBD_Category PD bxtosx_gt28days 0 dist_nipple_gt2 1 agecat_1 55-64 agecat_2 56_ simple_id 11 histology_cat BBD_non_atypia t2specimen_cat 31-60min bmi_cat 25-29.9 her2pos NO_INPUT any_children 1 enrolltime 2 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593433 SAMN05441227 646099 human metagenome 011_DLB collection_date 2014-05-12 env_biome Buccal Cells env_feature Buccal Cells env_material Buccal Cells geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/22/2014 Custom_Index GCCGTTCTTCCA Data_Collection_Vers MCS_v2.4.1.3 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-A9MD5 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.3.32 Run_Folder 140722_M00710_0163_000000000-A9MD5 Sample_Concentration 3.69 Sample_Volume 100 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 163 Sequencing_Run_Type MiSeq_PEIn_300_Run Pool_Name NO_INPUT batch 1 Age 61 BMI 27.98 Body_weight_kg 77 Weight_category 1 Smoker_status Former_smoker Or_if_exact_date_unknown_choose _6_weeks Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 1 Parity 1 Year_of_last_parity NO_INPUT Breastfed_ever Yes How_long_breastfed_cumulative _1_year Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis Papillary_lesion_w/o_atypia If_other_please_specify_2 NO_INPUT Date_of_surgery 5/13/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 2000 abx_time 13_22_00 incision_time 13_41_00 closure_time 15_14_00 specimen_time 14_23_00 time_from_incision_to_specimen 42 Distance_of_specimen_from_nipple 5 dfn_cat __2_but_within_5 Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ Papillary_lesion_w/o_atypia Secondary_Pathology_associated_ NO_INPUT If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause 44 years_since_menopause 17 days_since_last_period NO_INPUT days_biop_to_surg 18 min_abx_to_specimen 61 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail Papillary_lesion_w/o_atypia BBD_Category PD bxtosx_gt28days 0 dist_nipple_gt2 1 agecat_1 55-64 agecat_2 56_ simple_id 11 histology_cat BBD_non_atypia t2specimen_cat 31-60min bmi_cat 25-29.9 her2pos NO_INPUT any_children 1 enrolltime 2 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593434 SAMN05441229 646099 human metagenome 011_DLB collection_date 2014-05-13 env_biome Skin Tissue env_feature Skin Tissue env_material Skin Tissue geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/22/2014 Custom_Index TGAGTGGAATGA Data_Collection_Vers MCS_v2.4.1.3 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-A9KF5 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.3.32 Run_Folder 140722_M00738_0001_000000000-A9KF5 Sample_Concentration 0.22 Sample_Volume 100 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 1 Sequencing_Run_Type MiSeq_PEIn_300_Run Pool_Name NO_INPUT batch 1 Age 61 BMI 27.98 Body_weight_kg 77 Weight_category 1 Smoker_status Former_smoker Or_if_exact_date_unknown_choose _6_weeks Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 1 Parity 1 Year_of_last_parity NO_INPUT Breastfed_ever Yes How_long_breastfed_cumulative _1_year Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis Papillary_lesion_w/o_atypia If_other_please_specify_2 NO_INPUT Date_of_surgery 5/13/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 2000 abx_time 13_22_00 incision_time 13_41_00 closure_time 15_14_00 specimen_time 14_23_00 time_from_incision_to_specimen 42 Distance_of_specimen_from_nipple 5 dfn_cat __2_but_within_5 Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ Papillary_lesion_w/o_atypia Secondary_Pathology_associated_ NO_INPUT If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause 44 years_since_menopause 17 days_since_last_period NO_INPUT days_biop_to_surg 18 min_abx_to_specimen 61 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail Papillary_lesion_w/o_atypia BBD_Category PD bxtosx_gt28days 0 dist_nipple_gt2 1 agecat_1 55-64 agecat_2 56_ simple_id 11 histology_cat BBD_non_atypia t2specimen_cat 31-60min bmi_cat 25-29.9 her2pos NO_INPUT any_children 1 enrolltime 2 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593435 SAMN05441203 646099 human metagenome 002_JMR collection_date 2014-04-09 env_biome Breast env_feature Breast env_material Breast geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/22/2014 Custom_Index TACTAGGGCTTG Data_Collection_Vers MCS_v2.4.1.3 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-A9MD5 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.3.32 Run_Folder 140722_M00710_0163_000000000-A9MD5 Sample_Concentration 3.69 Sample_Volume 100 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 163 Sequencing_Run_Type MiSeq_PEIn_300_Run Pool_Name NO_INPUT batch 1 Age 63 BMI 27.2 Body_weight_kg 78.7 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 1 Parity 1 Year_of_last_parity NO_INPUT Breastfed_ever No How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing BRCA_1/2_negative Family_history_of_breast_cancer 1_first_degree_relative Preoperative_diagnosis IDC If_other_please_specify_2 NO_INPUT Date_of_surgery 4/9/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 16_17_00 incision_time 16_30_00 closure_time 18_19_00 specimen_time 17_57_00 time_from_incision_to_specimen 87 Distance_of_specimen_from_nipple 9 dfn_cat __5_cm Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 5 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ DCIS If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1a Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IA ER_status _75_ PR_status _75_ HER2 3_ HER2_FISH Not_Performed Invasive_Grade II Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period NO_INPUT days_biop_to_surg 19 min_abx_to_specimen 100 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 0 dist_nipple_gt2 1 agecat_1 55-64 agecat_2 56_ simple_id 2 histology_cat InvCa t2specimen_cat 61-90min bmi_cat 25-29.9 her2pos 1 any_children 1 enrolltime 1 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593436 SAMN05441230 646099 human metagenome 013_DMK collection_date 2014-05-16 env_biome Breast env_feature Breast env_material Breast geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/22/2014 Custom_Index TGAATAGTCCGC Data_Collection_Vers MCS_v2.4.1.3 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-A9MD5 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.3.32 Run_Folder 140722_M00710_0163_000000000-A9MD5 Sample_Concentration 3.69 Sample_Volume 100 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 163 Sequencing_Run_Type MiSeq_PEIn_300_Run Pool_Name NO_INPUT batch 1 Age 53 BMI 48.1 Body_weight_kg 133.8 Weight_category 3 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 1 Parity 1 Year_of_last_parity NO_INPUT Breastfed_ever Yes How_long_breastfed_cumulative _1_year Menopausal_status Pre-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer _1_first_degree_relative Preoperative_diagnosis IDC If_other_please_specify_2 NO_INPUT Date_of_surgery 5/16/2014 Preoperative_Hibiclens_wash_doc Yes Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 3000 abx_time 8_36_00 incision_time 8_53_00 closure_time 10_48_00 specimen_time 10_15_00 time_from_incision_to_specimen 82 Distance_of_specimen_from_nipple 19 dfn_cat __5_cm Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 3 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ DCIS If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1b Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IA ER_status _75_ PR_status _75_ HER2 1_ HER2_FISH Not_Performed Invasive_Grade I Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period -22 days_biop_to_surg 15 min_abx_to_specimen 99 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 0 dist_nipple_gt2 1 agecat_1 33-54 agecat_2 45-55 simple_id 13 histology_cat InvCa t2specimen_cat 61-90min bmi_cat 30_ her2pos 0 any_children 1 enrolltime 2 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593437 SAMN05441232 646099 human metagenome 013_DMK collection_date 2014-05-16 env_biome Skin Swab env_feature Skin Swab env_material Skin Swab geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 2/10/2015 Custom_Index ATCTTAGACTGC Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-ACWFJ Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150210_M00738_0016_000000000-ACWFJ Sample_Concentration 13.5 Sample_Volume 50 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 16 Sequencing_Run_Type MiSeq_PEIn_300_Run Pool_Name NO_INPUT batch 2 Age 53 BMI 48.1 Body_weight_kg 133.8 Weight_category 3 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 1 Parity 1 Year_of_last_parity NO_INPUT Breastfed_ever Yes How_long_breastfed_cumulative _1_year Menopausal_status Pre-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer _1_first_degree_relative Preoperative_diagnosis IDC If_other_please_specify_2 NO_INPUT Date_of_surgery 5/16/2014 Preoperative_Hibiclens_wash_doc Yes Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 3000 abx_time 8_36_00 incision_time 8_53_00 closure_time 10_48_00 specimen_time 10_15_00 time_from_incision_to_specimen 82 Distance_of_specimen_from_nipple 19 dfn_cat __5_cm Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 3 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ DCIS If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1b Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IA ER_status _75_ PR_status _75_ HER2 1_ HER2_FISH Not_Performed Invasive_Grade I Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period -22 days_biop_to_surg 15 min_abx_to_specimen 99 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 0 dist_nipple_gt2 1 agecat_1 33-54 agecat_2 45-55 simple_id 13 histology_cat InvCa t2specimen_cat 61-90min bmi_cat 30_ her2pos 0 any_children 1 enrolltime 2 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593438 SAMN05441231 646099 human metagenome 013_DMK collection_date 2014-05-15 env_biome Buccal Cells env_feature Buccal Cells env_material Buccal Cells geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/22/2014 Custom_Index CGTTCAATCCAA Data_Collection_Vers MCS_v2.4.1.3 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-A9MD5 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.3.32 Run_Folder 140722_M00710_0163_000000000-A9MD5 Sample_Concentration 3.69 Sample_Volume 100 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 163 Sequencing_Run_Type MiSeq_PEIn_300_Run Pool_Name NO_INPUT batch 1 Age 53 BMI 48.1 Body_weight_kg 133.8 Weight_category 3 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 1 Parity 1 Year_of_last_parity NO_INPUT Breastfed_ever Yes How_long_breastfed_cumulative _1_year Menopausal_status Pre-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer _1_first_degree_relative Preoperative_diagnosis IDC If_other_please_specify_2 NO_INPUT Date_of_surgery 5/16/2014 Preoperative_Hibiclens_wash_doc Yes Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 3000 abx_time 8_36_00 incision_time 8_53_00 closure_time 10_48_00 specimen_time 10_15_00 time_from_incision_to_specimen 82 Distance_of_specimen_from_nipple 19 dfn_cat __5_cm Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 3 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ DCIS If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1b Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IA ER_status _75_ PR_status _75_ HER2 1_ HER2_FISH Not_Performed Invasive_Grade I Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period -22 days_biop_to_surg 15 min_abx_to_specimen 99 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 0 dist_nipple_gt2 1 agecat_1 33-54 agecat_2 45-55 simple_id 13 histology_cat InvCa t2specimen_cat 61-90min bmi_cat 30_ her2pos 0 any_children 1 enrolltime 2 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593439 SAMN05441233 646099 human metagenome 014_RLS collection_date 2014-07-27 env_biome Breast env_feature Breast env_material Breast geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/2/2015 Custom_Index TCCAGCTGACAA Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AFV88 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150702_M00710_0038_000000000-AFV88 Sample_Concentration 0.9 Sample_Volume 50 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 38 Sequencing_Run_Type MiSeq_PE_300_Run Pool_Name Hieken1_060815 batch 3 Age 59 BMI 40.3 Body_weight_kg 125 Weight_category 3 Smoker_status Former_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus Yes_NIDDM ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 3 Parity 1 Year_of_last_parity NO_INPUT Breastfed_ever No How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis Flat_epithelial_atypia If_other_please_specify_2 NO_INPUT Date_of_surgery 6/27/2014 Preoperative_Hibiclens_wash_doc Yes Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 3000 abx_time 8_36_00 incision_time 8_40_00 closure_time 9_48_00 specimen_time 9_32_00 time_from_incision_to_specimen 52 Distance_of_specimen_from_nipple 9 dfn_cat __5_cm Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ Flat_epithelial_atypia Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause 55 years_since_menopause 4 days_since_last_period NO_INPUT days_biop_to_surg 64 min_abx_to_specimen 56 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail Flat_epithelial_atypia BBD_Category PD bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 55-64 agecat_2 56_ simple_id 14 histology_cat BBD_non_atypia t2specimen_cat 31-60min bmi_cat 30_ her2pos NO_INPUT any_children 1 enrolltime 2 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593440 SAMN05441234 646099 human metagenome 014_RLS collection_date 2014-05-22 env_biome Buccal Cells env_feature Buccal Cells env_material Buccal Cells geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/22/2014 Custom_Index CACTGGTATATC Data_Collection_Vers MCS_v2.4.1.3 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-A9MD5 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.3.32 Run_Folder 140722_M00710_0163_000000000-A9MD5 Sample_Concentration 3.69 Sample_Volume 100 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 163 Sequencing_Run_Type MiSeq_PEIn_300_Run Pool_Name NO_INPUT batch 1 Age 59 BMI 40.3 Body_weight_kg 125 Weight_category 3 Smoker_status Former_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus Yes_NIDDM ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 3 Parity 1 Year_of_last_parity NO_INPUT Breastfed_ever No How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis Flat_epithelial_atypia If_other_please_specify_2 NO_INPUT Date_of_surgery 6/27/2014 Preoperative_Hibiclens_wash_doc Yes Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 3000 abx_time 8_36_00 incision_time 8_40_00 closure_time 9_48_00 specimen_time 9_32_00 time_from_incision_to_specimen 52 Distance_of_specimen_from_nipple 9 dfn_cat __5_cm Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ Flat_epithelial_atypia Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause 55 years_since_menopause 4 days_since_last_period NO_INPUT days_biop_to_surg 64 min_abx_to_specimen 56 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail Flat_epithelial_atypia BBD_Category PD bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 55-64 agecat_2 56_ simple_id 14 histology_cat BBD_non_atypia t2specimen_cat 31-60min bmi_cat 30_ her2pos NO_INPUT any_children 1 enrolltime 2 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593441 SAMN05441235 646099 human metagenome 014_RLS collection_date 2014-06-27 env_biome Skin Swab env_feature Skin Swab env_material Skin Swab geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/2/2015 Custom_Index TCCCGTCCTGTA Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AFV88 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150702_M00710_0038_000000000-AFV88 Sample_Concentration 0.9 Sample_Volume 50 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 38 Sequencing_Run_Type MiSeq_PE_300_Run Pool_Name Hieken1_060815 batch 3 Age 59 BMI 40.3 Body_weight_kg 125 Weight_category 3 Smoker_status Former_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus Yes_NIDDM ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 3 Parity 1 Year_of_last_parity NO_INPUT Breastfed_ever No How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis Flat_epithelial_atypia If_other_please_specify_2 NO_INPUT Date_of_surgery 6/27/2014 Preoperative_Hibiclens_wash_doc Yes Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 3000 abx_time 8_36_00 incision_time 8_40_00 closure_time 9_48_00 specimen_time 9_32_00 time_from_incision_to_specimen 52 Distance_of_specimen_from_nipple 9 dfn_cat __5_cm Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ Flat_epithelial_atypia Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause 55 years_since_menopause 4 days_since_last_period NO_INPUT days_biop_to_surg 64 min_abx_to_specimen 56 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail Flat_epithelial_atypia BBD_Category PD bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 55-64 agecat_2 56_ simple_id 14 histology_cat BBD_non_atypia t2specimen_cat 31-60min bmi_cat 30_ her2pos NO_INPUT any_children 1 enrolltime 2 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593442 SAMN05441236 646099 human metagenome 015_NJL collection_date 2014-05-30 env_biome Breast env_feature Breast env_material Breast geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 40 BMI 31 Body_weight_kg 75.5 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 1 Prior_ipsilateral_breast_surgery No Gravidity 3 Parity 3 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Pre-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis Papillary_lesion_w/o_atypia If_other_please_specify_2 NO_INPUT Date_of_surgery 5/30/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 8_12_00 incision_time 8_35_00 closure_time 9_43_00 specimen_time 9_21_00 time_from_incision_to_specimen 46 Distance_of_specimen_from_nipple 5 dfn_cat __2_but_within_5 Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ Papillary_lesion_w/o_atypia Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period NO_INPUT days_biop_to_surg 23 min_abx_to_specimen 69 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail Papillary_lesion_w/o_atypia BBD_Category PD bxtosx_gt28days 0 dist_nipple_gt2 1 agecat_1 33-54 agecat_2 33-44 simple_id 15 histology_cat BBD_non_atypia t2specimen_cat 31-60min bmi_cat 30_ her2pos NO_INPUT any_children 1 enrolltime 2 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593443 SAMN05441237 646099 human metagenome 015_NJL collection_date 2014-05-22 env_biome Buccal Cells env_feature Buccal Cells env_material Buccal Cells geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/22/2014 Custom_Index TGGCAGTTTGTT Data_Collection_Vers MCS_v2.4.1.3 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-A9MD5 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.3.32 Run_Folder 140722_M00710_0163_000000000-A9MD5 Sample_Concentration 3.69 Sample_Volume 100 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 163 Sequencing_Run_Type MiSeq_PEIn_300_Run Pool_Name NO_INPUT batch 1 Age 40 BMI 31 Body_weight_kg 75.5 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 1 Prior_ipsilateral_breast_surgery No Gravidity 3 Parity 3 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Pre-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis Papillary_lesion_w/o_atypia If_other_please_specify_2 NO_INPUT Date_of_surgery 5/30/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 8_12_00 incision_time 8_35_00 closure_time 9_43_00 specimen_time 9_21_00 time_from_incision_to_specimen 46 Distance_of_specimen_from_nipple 5 dfn_cat __2_but_within_5 Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ Papillary_lesion_w/o_atypia Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period NO_INPUT days_biop_to_surg 23 min_abx_to_specimen 69 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail Papillary_lesion_w/o_atypia BBD_Category PD bxtosx_gt28days 0 dist_nipple_gt2 1 agecat_1 33-54 agecat_2 33-44 simple_id 15 histology_cat BBD_non_atypia t2specimen_cat 31-60min bmi_cat 30_ her2pos NO_INPUT any_children 1 enrolltime 2 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593444 SAMN05441238 646099 human metagenome 015_NJL collection_date 2014-05-30 env_biome Skin Swab env_feature Skin Swab env_material Skin Swab geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 40 BMI 31 Body_weight_kg 75.5 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 1 Prior_ipsilateral_breast_surgery No Gravidity 3 Parity 3 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Pre-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis Papillary_lesion_w/o_atypia If_other_please_specify_2 NO_INPUT Date_of_surgery 5/30/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 8_12_00 incision_time 8_35_00 closure_time 9_43_00 specimen_time 9_21_00 time_from_incision_to_specimen 46 Distance_of_specimen_from_nipple 5 dfn_cat __2_but_within_5 Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ Papillary_lesion_w/o_atypia Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period NO_INPUT days_biop_to_surg 23 min_abx_to_specimen 69 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail Papillary_lesion_w/o_atypia BBD_Category PD bxtosx_gt28days 0 dist_nipple_gt2 1 agecat_1 33-54 agecat_2 33-44 simple_id 15 histology_cat BBD_non_atypia t2specimen_cat 31-60min bmi_cat 30_ her2pos NO_INPUT any_children 1 enrolltime 2 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593445 SAMN05441239 646099 human metagenome 015_NJL collection_date 2014-05-30 env_biome Skin Tissue env_feature Skin Tissue env_material Skin Tissue geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 40 BMI 31 Body_weight_kg 75.5 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 1 Prior_ipsilateral_breast_surgery No Gravidity 3 Parity 3 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Pre-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis Papillary_lesion_w/o_atypia If_other_please_specify_2 NO_INPUT Date_of_surgery 5/30/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 8_12_00 incision_time 8_35_00 closure_time 9_43_00 specimen_time 9_21_00 time_from_incision_to_specimen 46 Distance_of_specimen_from_nipple 5 dfn_cat __2_but_within_5 Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ Papillary_lesion_w/o_atypia Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period NO_INPUT days_biop_to_surg 23 min_abx_to_specimen 69 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail Papillary_lesion_w/o_atypia BBD_Category PD bxtosx_gt28days 0 dist_nipple_gt2 1 agecat_1 33-54 agecat_2 33-44 simple_id 15 histology_cat BBD_non_atypia t2specimen_cat 31-60min bmi_cat 30_ her2pos NO_INPUT any_children 1 enrolltime 2 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593446 SAMN05441204 646099 human metagenome 002_JMR collection_date 2014-04-08 env_biome Buccal Cells env_feature Buccal Cells env_material Buccal Cells geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/22/2014 Custom_Index ATTTGGGTCATC Data_Collection_Vers MCS_v2.4.1.3 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-A9MD5 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.3.32 Run_Folder 140722_M00710_0163_000000000-A9MD5 Sample_Concentration 3.69 Sample_Volume 100 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 163 Sequencing_Run_Type MiSeq_PEIn_300_Run Pool_Name NO_INPUT batch 1 Age 63 BMI 27.2 Body_weight_kg 78.7 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 1 Parity 1 Year_of_last_parity NO_INPUT Breastfed_ever No How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing BRCA_1/2_negative Family_history_of_breast_cancer 1_first_degree_relative Preoperative_diagnosis IDC If_other_please_specify_2 NO_INPUT Date_of_surgery 4/9/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 16_17_00 incision_time 16_30_00 closure_time 18_19_00 specimen_time 17_57_00 time_from_incision_to_specimen 87 Distance_of_specimen_from_nipple 9 dfn_cat __5_cm Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 5 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ DCIS If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1a Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IA ER_status _75_ PR_status _75_ HER2 3_ HER2_FISH Not_Performed Invasive_Grade II Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period NO_INPUT days_biop_to_surg 19 min_abx_to_specimen 100 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 0 dist_nipple_gt2 1 agecat_1 55-64 agecat_2 56_ simple_id 2 histology_cat InvCa t2specimen_cat 61-90min bmi_cat 25-29.9 her2pos 1 any_children 1 enrolltime 1 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593447 SAMN05441240 646099 human metagenome 016_CMM collection_date 2014-06-13 env_biome Breast env_feature Breast env_material Breast geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 44 BMI 21.9 Body_weight_kg 61.8 Weight_category 1 Smoker_status Former_smoker Or_if_exact_date_unknown_choose _6_weeks Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 2 Parity 2 Year_of_last_parity NO_INPUT Breastfed_ever Yes How_long_breastfed_cumulative One_year_or_more Menopausal_status Pre-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis IDC If_other_please_specify_2 NO_INPUT Date_of_surgery 6/13/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 14_32_00 incision_time 14_58_00 closure_time 16_52_00 specimen_time 16_24_00 time_from_incision_to_specimen 86 Distance_of_specimen_from_nipple 3 dfn_cat __2_but_within_5 Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 3 Number_of_positive_lymph_nodes 1 final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ DCIS If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T2 Pathologic_N_stage N1mic Pathologic_M_stage M0 Pathologic_TNM_stage IIA ER_status _75_ PR_status _75_ HER2 1_ HER2_FISH Not_Performed Invasive_Grade II Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period -46 days_biop_to_surg 24 min_abx_to_specimen 112 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 0 dist_nipple_gt2 1 agecat_1 33-54 agecat_2 33-44 simple_id 16 histology_cat InvCa t2specimen_cat 61-90min bmi_cat 18.5-24.9 her2pos 0 any_children 1 enrolltime 2 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593448 SAMN05441242 646099 human metagenome 016_CMM collection_date 2014-06-13 env_biome Skin Swab env_feature Skin Swab env_material Skin Swab geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 44 BMI 21.9 Body_weight_kg 61.8 Weight_category 1 Smoker_status Former_smoker Or_if_exact_date_unknown_choose _6_weeks Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 2 Parity 2 Year_of_last_parity NO_INPUT Breastfed_ever Yes How_long_breastfed_cumulative One_year_or_more Menopausal_status Pre-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis IDC If_other_please_specify_2 NO_INPUT Date_of_surgery 6/13/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 14_32_00 incision_time 14_58_00 closure_time 16_52_00 specimen_time 16_24_00 time_from_incision_to_specimen 86 Distance_of_specimen_from_nipple 3 dfn_cat __2_but_within_5 Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 3 Number_of_positive_lymph_nodes 1 final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ DCIS If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T2 Pathologic_N_stage N1mic Pathologic_M_stage M0 Pathologic_TNM_stage IIA ER_status _75_ PR_status _75_ HER2 1_ HER2_FISH Not_Performed Invasive_Grade II Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period -46 days_biop_to_surg 24 min_abx_to_specimen 112 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 0 dist_nipple_gt2 1 agecat_1 33-54 agecat_2 33-44 simple_id 16 histology_cat InvCa t2specimen_cat 61-90min bmi_cat 18.5-24.9 her2pos 0 any_children 1 enrolltime 2 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593449 SAMN05441241 646099 human metagenome 016_CMM collection_date 2014-06-02 env_biome Buccal Cells env_feature Buccal Cells env_material Buccal Cells geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/2/2015 Custom_Index TGGTAGGTACCG Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AFV88 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150702_M00710_0038_000000000-AFV88 Sample_Concentration 0.9 Sample_Volume 50 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 38 Sequencing_Run_Type MiSeq_PE_300_Run Pool_Name Hieken1_060815 batch 3 Age 44 BMI 21.9 Body_weight_kg 61.8 Weight_category 1 Smoker_status Former_smoker Or_if_exact_date_unknown_choose _6_weeks Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 2 Parity 2 Year_of_last_parity NO_INPUT Breastfed_ever Yes How_long_breastfed_cumulative One_year_or_more Menopausal_status Pre-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis IDC If_other_please_specify_2 NO_INPUT Date_of_surgery 6/13/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 14_32_00 incision_time 14_58_00 closure_time 16_52_00 specimen_time 16_24_00 time_from_incision_to_specimen 86 Distance_of_specimen_from_nipple 3 dfn_cat __2_but_within_5 Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 3 Number_of_positive_lymph_nodes 1 final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ DCIS If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T2 Pathologic_N_stage N1mic Pathologic_M_stage M0 Pathologic_TNM_stage IIA ER_status _75_ PR_status _75_ HER2 1_ HER2_FISH Not_Performed Invasive_Grade II Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period -46 days_biop_to_surg 24 min_abx_to_specimen 112 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 0 dist_nipple_gt2 1 agecat_1 33-54 agecat_2 33-44 simple_id 16 histology_cat InvCa t2specimen_cat 61-90min bmi_cat 18.5-24.9 her2pos 0 any_children 1 enrolltime 2 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593450 SAMN05441243 646099 human metagenome 016_CMM collection_date 2014-06-13 env_biome Skin Tissue env_feature Skin Tissue env_material Skin Tissue geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 44 BMI 21.9 Body_weight_kg 61.8 Weight_category 1 Smoker_status Former_smoker Or_if_exact_date_unknown_choose _6_weeks Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 2 Parity 2 Year_of_last_parity NO_INPUT Breastfed_ever Yes How_long_breastfed_cumulative One_year_or_more Menopausal_status Pre-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis IDC If_other_please_specify_2 NO_INPUT Date_of_surgery 6/13/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 14_32_00 incision_time 14_58_00 closure_time 16_52_00 specimen_time 16_24_00 time_from_incision_to_specimen 86 Distance_of_specimen_from_nipple 3 dfn_cat __2_but_within_5 Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 3 Number_of_positive_lymph_nodes 1 final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ DCIS If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T2 Pathologic_N_stage N1mic Pathologic_M_stage M0 Pathologic_TNM_stage IIA ER_status _75_ PR_status _75_ HER2 1_ HER2_FISH Not_Performed Invasive_Grade II Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period -46 days_biop_to_surg 24 min_abx_to_specimen 112 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 0 dist_nipple_gt2 1 agecat_1 33-54 agecat_2 33-44 simple_id 16 histology_cat InvCa t2specimen_cat 61-90min bmi_cat 18.5-24.9 her2pos 0 any_children 1 enrolltime 2 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593451 SAMN05441244 646099 human metagenome 017_JKJ collection_date 2014-06-23 env_biome Breast env_feature Breast env_material Breast geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 64 BMI 28.4 Body_weight_kg 77.6 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 3 Parity 3 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy Yes_neoadj_endocrine_therapy Genetic_testing BRCA_1/2_negative Family_history_of_breast_cancer 1_first_degree_relative Preoperative_diagnosis DCIS If_other_please_specify_2 NO_INPUT Date_of_surgery 6/23/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 11_56_00 incision_time 12_18_00 closure_time 14_29_00 specimen_time 14_01_00 time_from_incision_to_specimen 103 Distance_of_specimen_from_nipple 5 dfn_cat __2_but_within_5 Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 2 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ DCIS_w/microinvasion Secondary_Pathology_associated_ NO_INPUT If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1mic Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IA ER_status _75_ PR_status _75_ HER2 N/A HER2_FISH Not_Performed Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause 56 years_since_menopause 8 days_since_last_period NO_INPUT days_biop_to_surg 27 min_abx_to_specimen 125 erpos 1 prpos 1 Final_histology_more_detail DCIS_w/microinvasion BBD_Category NO_INPUT bxtosx_gt28days 0 dist_nipple_gt2 1 agecat_1 55-64 agecat_2 56_ simple_id 17 histology_cat InvCa t2specimen_cat 91-120mi bmi_cat 25-29.9 her2pos NO_INPUT any_children 1 enrolltime 2 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593452 SAMN05441245 646099 human metagenome 017_JKJ collection_date 2014-06-06 env_biome Buccal Cells env_feature Buccal Cells env_material Buccal Cells geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/2/2015 Custom_Index GCTAGCAAACGC Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AFV88 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150702_M00710_0038_000000000-AFV88 Sample_Concentration 0.9 Sample_Volume 50 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 38 Sequencing_Run_Type MiSeq_PE_300_Run Pool_Name Hieken1_060815 batch 3 Age 64 BMI 28.4 Body_weight_kg 77.6 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 3 Parity 3 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy Yes_neoadj_endocrine_therapy Genetic_testing BRCA_1/2_negative Family_history_of_breast_cancer 1_first_degree_relative Preoperative_diagnosis DCIS If_other_please_specify_2 NO_INPUT Date_of_surgery 6/23/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 11_56_00 incision_time 12_18_00 closure_time 14_29_00 specimen_time 14_01_00 time_from_incision_to_specimen 103 Distance_of_specimen_from_nipple 5 dfn_cat __2_but_within_5 Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 2 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ DCIS_w/microinvasion Secondary_Pathology_associated_ NO_INPUT If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1mic Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IA ER_status _75_ PR_status _75_ HER2 N/A HER2_FISH Not_Performed Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause 56 years_since_menopause 8 days_since_last_period NO_INPUT days_biop_to_surg 27 min_abx_to_specimen 125 erpos 1 prpos 1 Final_histology_more_detail DCIS_w/microinvasion BBD_Category NO_INPUT bxtosx_gt28days 0 dist_nipple_gt2 1 agecat_1 55-64 agecat_2 56_ simple_id 17 histology_cat InvCa t2specimen_cat 91-120mi bmi_cat 25-29.9 her2pos NO_INPUT any_children 1 enrolltime 2 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593453 SAMN05441246 646099 human metagenome 017_JKJ collection_date 2014-06-23 env_biome Skin Swab env_feature Skin Swab env_material Skin Swab geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/2/2015 Custom_Index CGAACCATGGAC Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AFV88 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150702_M00710_0038_000000000-AFV88 Sample_Concentration 0.9 Sample_Volume 50 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 38 Sequencing_Run_Type MiSeq_PE_300_Run Pool_Name Hieken1_060815 batch 3 Age 64 BMI 28.4 Body_weight_kg 77.6 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 3 Parity 3 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy Yes_neoadj_endocrine_therapy Genetic_testing BRCA_1/2_negative Family_history_of_breast_cancer 1_first_degree_relative Preoperative_diagnosis DCIS If_other_please_specify_2 NO_INPUT Date_of_surgery 6/23/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 11_56_00 incision_time 12_18_00 closure_time 14_29_00 specimen_time 14_01_00 time_from_incision_to_specimen 103 Distance_of_specimen_from_nipple 5 dfn_cat __2_but_within_5 Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 2 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ DCIS_w/microinvasion Secondary_Pathology_associated_ NO_INPUT If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1mic Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IA ER_status _75_ PR_status _75_ HER2 N/A HER2_FISH Not_Performed Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause 56 years_since_menopause 8 days_since_last_period NO_INPUT days_biop_to_surg 27 min_abx_to_specimen 125 erpos 1 prpos 1 Final_histology_more_detail DCIS_w/microinvasion BBD_Category NO_INPUT bxtosx_gt28days 0 dist_nipple_gt2 1 agecat_1 55-64 agecat_2 56_ simple_id 17 histology_cat InvCa t2specimen_cat 91-120mi bmi_cat 25-29.9 her2pos NO_INPUT any_children 1 enrolltime 2 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593455 SAMN05441247 646099 human metagenome 017_JKJ collection_date 2014-06-23 env_biome Skin Tissue env_feature Skin Tissue env_material Skin Tissue geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 64 BMI 28.4 Body_weight_kg 77.6 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 3 Parity 3 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy Yes_neoadj_endocrine_therapy Genetic_testing BRCA_1/2_negative Family_history_of_breast_cancer 1_first_degree_relative Preoperative_diagnosis DCIS If_other_please_specify_2 NO_INPUT Date_of_surgery 6/23/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 11_56_00 incision_time 12_18_00 closure_time 14_29_00 specimen_time 14_01_00 time_from_incision_to_specimen 103 Distance_of_specimen_from_nipple 5 dfn_cat __2_but_within_5 Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 2 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ DCIS_w/microinvasion Secondary_Pathology_associated_ NO_INPUT If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1mic Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IA ER_status _75_ PR_status _75_ HER2 N/A HER2_FISH Not_Performed Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause 56 years_since_menopause 8 days_since_last_period NO_INPUT days_biop_to_surg 27 min_abx_to_specimen 125 erpos 1 prpos 1 Final_histology_more_detail DCIS_w/microinvasion BBD_Category NO_INPUT bxtosx_gt28days 0 dist_nipple_gt2 1 agecat_1 55-64 agecat_2 56_ simple_id 17 histology_cat InvCa t2specimen_cat 91-120mi bmi_cat 25-29.9 her2pos NO_INPUT any_children 1 enrolltime 2 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593456 SAMN05441248 646099 human metagenome 018_NMV collection_date 2014-06-30 env_biome Breast env_feature Breast env_material Breast geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 37 BMI 22.9 Body_weight_kg 74.4 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 0 Parity 0 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Pre-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis Radial_scar If_other_please_specify_2 NO_INPUT Date_of_surgery 6/30/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ No Type_of_preop_antibiotic Not_doc Preop_antibiotic_dose_mg NO_INPUT abx_time NO_INPUT incision_time 8_51_00 closure_time 10_17_00 specimen_time 9_34_00 time_from_incision_to_specimen 43 Distance_of_specimen_from_nipple 2 dfn_cat __1_but_within_2 Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ LCIS Secondary_Pathology_associated_ ALH If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period -14 days_biop_to_surg 21 min_abx_to_specimen NO_INPUT erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail LCIS BBD_Category Atypia bxtosx_gt28days 0 dist_nipple_gt2 0 agecat_1 33-54 agecat_2 33-44 simple_id 18 histology_cat Atypia t2specimen_cat 31-60min bmi_cat 18.5-24.9 her2pos NO_INPUT any_children 0 enrolltime 2 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593457 SAMN05441249 646099 human metagenome 018_NMV collection_date 2014 env_biome Buccal Cells env_feature Buccal Cells env_material Buccal Cells geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 37 BMI 22.9 Body_weight_kg 74.4 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 0 Parity 0 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Pre-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis Radial_scar If_other_please_specify_2 NO_INPUT Date_of_surgery 6/30/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ No Type_of_preop_antibiotic Not_doc Preop_antibiotic_dose_mg NO_INPUT abx_time NO_INPUT incision_time 8_51_00 closure_time 10_17_00 specimen_time 9_34_00 time_from_incision_to_specimen 43 Distance_of_specimen_from_nipple 2 dfn_cat __1_but_within_2 Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ LCIS Secondary_Pathology_associated_ ALH If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period -14 days_biop_to_surg 21 min_abx_to_specimen NO_INPUT erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail LCIS BBD_Category Atypia bxtosx_gt28days 0 dist_nipple_gt2 0 agecat_1 33-54 agecat_2 33-44 simple_id 18 histology_cat Atypia t2specimen_cat 31-60min bmi_cat 18.5-24.9 her2pos NO_INPUT any_children 0 enrolltime 2 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593458 SAMN05441205 646099 human metagenome 002_JMR collection_date 2014-04-09 env_biome Skin Swab env_feature Skin Swab env_material Skin Swab geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 2/13/2015 Custom_Index ACTAAGTTCTGC Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-ADTR5 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150213_M00738_0017_000000000-ADTR5 Sample_Concentration 65 Sample_Volume 50 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 17 Sequencing_Run_Type MiSeq_PEIn_300_Run Pool_Name NO_INPUT batch 2 Age 63 BMI 27.2 Body_weight_kg 78.7 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 1 Parity 1 Year_of_last_parity NO_INPUT Breastfed_ever No How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing BRCA_1/2_negative Family_history_of_breast_cancer 1_first_degree_relative Preoperative_diagnosis IDC If_other_please_specify_2 NO_INPUT Date_of_surgery 4/9/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 16_17_00 incision_time 16_30_00 closure_time 18_19_00 specimen_time 17_57_00 time_from_incision_to_specimen 87 Distance_of_specimen_from_nipple 9 dfn_cat __5_cm Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 5 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ DCIS If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1a Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IA ER_status _75_ PR_status _75_ HER2 3_ HER2_FISH Not_Performed Invasive_Grade II Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period NO_INPUT days_biop_to_surg 19 min_abx_to_specimen 100 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 0 dist_nipple_gt2 1 agecat_1 55-64 agecat_2 56_ simple_id 2 histology_cat InvCa t2specimen_cat 61-90min bmi_cat 25-29.9 her2pos 1 any_children 1 enrolltime 1 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593459 SAMN05441250 646099 human metagenome 019_KJA collection_date 2014-08-05 env_biome Breast env_feature Breast env_material Breast geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 66 BMI 42.5 Body_weight_kg 92.5 Weight_category 2 Smoker_status Former_smoker Or_if_exact_date_unknown_choose _6_weeks Diabetes_mellitus Yes_NIDDM ASA_class 3 Prior_ipsilateral_breast_surgery No Gravidity 2 Parity 2 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis Other If_other_please_specify_2 mucin_w/atypia Date_of_surgery 8/5/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 2000 abx_time 8_47_00 incision_time 8_59_00 closure_time 10_21_00 specimen_time 9_59_00 time_from_incision_to_specimen 60 Distance_of_specimen_from_nipple 7 dfn_cat __5_cm Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ ADH Secondary_Pathology_associated_ NO_INPUT If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause 37 years_since_menopause 29 days_since_last_period NO_INPUT days_biop_to_surg 42 min_abx_to_specimen 72 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail ADH BBD_Category Atypia bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 65-74 agecat_2 56_ simple_id 19 histology_cat Atypia t2specimen_cat 31-60min bmi_cat 30_ her2pos NO_INPUT any_children 1 enrolltime 2 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593460 SAMN05441251 646099 human metagenome 019_KJA collection_date 2014-07-07 env_biome Buccal Cells env_feature Buccal Cells env_material Buccal Cells geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 66 BMI 42.5 Body_weight_kg 92.5 Weight_category 2 Smoker_status Former_smoker Or_if_exact_date_unknown_choose _6_weeks Diabetes_mellitus Yes_NIDDM ASA_class 3 Prior_ipsilateral_breast_surgery No Gravidity 2 Parity 2 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis Other If_other_please_specify_2 mucin_w/atypia Date_of_surgery 8/5/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 2000 abx_time 8_47_00 incision_time 8_59_00 closure_time 10_21_00 specimen_time 9_59_00 time_from_incision_to_specimen 60 Distance_of_specimen_from_nipple 7 dfn_cat __5_cm Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ ADH Secondary_Pathology_associated_ NO_INPUT If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause 37 years_since_menopause 29 days_since_last_period NO_INPUT days_biop_to_surg 42 min_abx_to_specimen 72 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail ADH BBD_Category Atypia bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 65-74 agecat_2 56_ simple_id 19 histology_cat Atypia t2specimen_cat 31-60min bmi_cat 30_ her2pos NO_INPUT any_children 1 enrolltime 2 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593461 SAMN05441252 646099 human metagenome 019_KJA collection_date 2014-08-05 env_biome Skin Swab env_feature Skin Swab env_material Skin Swab geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/2/2015 Custom_Index GACCTTACGATT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AFV88 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150702_M00710_0038_000000000-AFV88 Sample_Concentration 0.9 Sample_Volume 50 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 38 Sequencing_Run_Type MiSeq_PE_300_Run Pool_Name Hieken1_060815 batch 3 Age 66 BMI 42.5 Body_weight_kg 92.5 Weight_category 2 Smoker_status Former_smoker Or_if_exact_date_unknown_choose _6_weeks Diabetes_mellitus Yes_NIDDM ASA_class 3 Prior_ipsilateral_breast_surgery No Gravidity 2 Parity 2 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis Other If_other_please_specify_2 mucin_w/atypia Date_of_surgery 8/5/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 2000 abx_time 8_47_00 incision_time 8_59_00 closure_time 10_21_00 specimen_time 9_59_00 time_from_incision_to_specimen 60 Distance_of_specimen_from_nipple 7 dfn_cat __5_cm Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ ADH Secondary_Pathology_associated_ NO_INPUT If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause 37 years_since_menopause 29 days_since_last_period NO_INPUT days_biop_to_surg 42 min_abx_to_specimen 72 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail ADH BBD_Category Atypia bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 65-74 agecat_2 56_ simple_id 19 histology_cat Atypia t2specimen_cat 31-60min bmi_cat 30_ her2pos NO_INPUT any_children 1 enrolltime 2 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593462 SAMN05441253 646099 human metagenome 022_SAL collection_date 2014-07-31 env_biome Breast env_feature Breast env_material Breast geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 65 BMI 42.7 Body_weight_kg 104 Weight_category 2 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 0 Parity 0 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis DCIS If_other_please_specify_2 NO_INPUT Date_of_surgery 7/31/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 2000 abx_time 8_01_00 incision_time 8_26_00 closure_time 10_49_00 specimen_time 10_49_00 time_from_incision_to_specimen 143 Distance_of_specimen_from_nipple 3 dfn_cat __2_but_within_5 Breast_operation WLE Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Malignant Final_pathology_histology_ DCIS Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage Tis Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage 0 ER_status _75_ PR_status _75_ HER2 N/A HER2_FISH Not_Performed Invasive_Grade NO_INPUT Grade_for_DCIS High Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period NO_INPUT days_biop_to_surg 44 min_abx_to_specimen 168 erpos 1 prpos 1 Final_histology_more_detail DCIS BBD_Category NO_INPUT bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 65-74 agecat_2 56_ simple_id 22 histology_cat DCIS t2specimen_cat _120min bmi_cat 30_ her2pos NO_INPUT any_children 0 enrolltime 3 histology_cat2 DCIS BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593463 SAMN05441254 646099 human metagenome 022_SAL collection_date 2014-07-28 env_biome Buccal Cells env_feature Buccal Cells env_material Buccal Cells geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 65 BMI 42.7 Body_weight_kg 104 Weight_category 2 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 0 Parity 0 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis DCIS If_other_please_specify_2 NO_INPUT Date_of_surgery 7/31/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 2000 abx_time 8_01_00 incision_time 8_26_00 closure_time 10_49_00 specimen_time 10_49_00 time_from_incision_to_specimen 143 Distance_of_specimen_from_nipple 3 dfn_cat __2_but_within_5 Breast_operation WLE Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Malignant Final_pathology_histology_ DCIS Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage Tis Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage 0 ER_status _75_ PR_status _75_ HER2 N/A HER2_FISH Not_Performed Invasive_Grade NO_INPUT Grade_for_DCIS High Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period NO_INPUT days_biop_to_surg 44 min_abx_to_specimen 168 erpos 1 prpos 1 Final_histology_more_detail DCIS BBD_Category NO_INPUT bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 65-74 agecat_2 56_ simple_id 22 histology_cat DCIS t2specimen_cat _120min bmi_cat 30_ her2pos NO_INPUT any_children 0 enrolltime 3 histology_cat2 DCIS BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593464 SAMN05441255 646099 human metagenome 022_SAL collection_date 2014-07-31 env_biome Skin Swab env_feature Skin Swab env_material Skin Swab geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/2/2015 Custom_Index CTAACGCAGTCA Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AFV88 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150702_M00710_0038_000000000-AFV88 Sample_Concentration 0.9 Sample_Volume 50 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 38 Sequencing_Run_Type MiSeq_PE_300_Run Pool_Name Hieken1_060815 batch 3 Age 65 BMI 42.7 Body_weight_kg 104 Weight_category 2 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 0 Parity 0 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis DCIS If_other_please_specify_2 NO_INPUT Date_of_surgery 7/31/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 2000 abx_time 8_01_00 incision_time 8_26_00 closure_time 10_49_00 specimen_time 10_49_00 time_from_incision_to_specimen 143 Distance_of_specimen_from_nipple 3 dfn_cat __2_but_within_5 Breast_operation WLE Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Malignant Final_pathology_histology_ DCIS Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage Tis Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage 0 ER_status _75_ PR_status _75_ HER2 N/A HER2_FISH Not_Performed Invasive_Grade NO_INPUT Grade_for_DCIS High Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period NO_INPUT days_biop_to_surg 44 min_abx_to_specimen 168 erpos 1 prpos 1 Final_histology_more_detail DCIS BBD_Category NO_INPUT bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 65-74 agecat_2 56_ simple_id 22 histology_cat DCIS t2specimen_cat _120min bmi_cat 30_ her2pos NO_INPUT any_children 0 enrolltime 3 histology_cat2 DCIS BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593465 SAMN05441256 646099 human metagenome 022_SAL collection_date 2014-07-31 env_biome Skin Tissue env_feature Skin Tissue env_material Skin Tissue geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 65 BMI 42.7 Body_weight_kg 104 Weight_category 2 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 0 Parity 0 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis DCIS If_other_please_specify_2 NO_INPUT Date_of_surgery 7/31/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 2000 abx_time 8_01_00 incision_time 8_26_00 closure_time 10_49_00 specimen_time 10_49_00 time_from_incision_to_specimen 143 Distance_of_specimen_from_nipple 3 dfn_cat __2_but_within_5 Breast_operation WLE Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Malignant Final_pathology_histology_ DCIS Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage Tis Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage 0 ER_status _75_ PR_status _75_ HER2 N/A HER2_FISH Not_Performed Invasive_Grade NO_INPUT Grade_for_DCIS High Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period NO_INPUT days_biop_to_surg 44 min_abx_to_specimen 168 erpos 1 prpos 1 Final_histology_more_detail DCIS BBD_Category NO_INPUT bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 65-74 agecat_2 56_ simple_id 22 histology_cat DCIS t2specimen_cat _120min bmi_cat 30_ her2pos NO_INPUT any_children 0 enrolltime 3 histology_cat2 DCIS BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593466 SAMN05441257 646099 human metagenome 023_LJL collection_date 2014-08-11 env_biome Breast env_feature Breast env_material Breast geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 52 BMI 30.3 Body_weight_kg 69.1 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 0 Parity 0 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis IDC If_other_please_specify_2 NO_INPUT Date_of_surgery 8/11/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 13_21_00 incision_time 13_50_00 closure_time 15_49_00 specimen_time 15_10_00 time_from_incision_to_specimen 80 Distance_of_specimen_from_nipple 5 dfn_cat __2_but_within_5 Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 4 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ DCIS If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1a Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IA ER_status _75_ PR_status 26-50_ HER2 2_ HER2_FISH Not_Amplified Invasive_Grade II Grade_for_DCIS NO_INPUT Age_menopause 50 years_since_menopause 2 days_since_last_period NO_INPUT days_biop_to_surg 42 min_abx_to_specimen 109 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 33-54 agecat_2 45-55 simple_id 23 histology_cat InvCa t2specimen_cat 61-90min bmi_cat 30_ her2pos 0 any_children 0 enrolltime 3 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593467 SAMN05441258 646099 human metagenome 023_LJL collection_date 2014-07-29 env_biome Buccal Cells env_feature Buccal Cells env_material Buccal Cells geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 52 BMI 30.3 Body_weight_kg 69.1 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 0 Parity 0 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis IDC If_other_please_specify_2 NO_INPUT Date_of_surgery 8/11/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 13_21_00 incision_time 13_50_00 closure_time 15_49_00 specimen_time 15_10_00 time_from_incision_to_specimen 80 Distance_of_specimen_from_nipple 5 dfn_cat __2_but_within_5 Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 4 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ DCIS If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1a Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IA ER_status _75_ PR_status 26-50_ HER2 2_ HER2_FISH Not_Amplified Invasive_Grade II Grade_for_DCIS NO_INPUT Age_menopause 50 years_since_menopause 2 days_since_last_period NO_INPUT days_biop_to_surg 42 min_abx_to_specimen 109 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 33-54 agecat_2 45-55 simple_id 23 histology_cat InvCa t2specimen_cat 61-90min bmi_cat 30_ her2pos 0 any_children 0 enrolltime 3 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593468 SAMN05441259 646099 human metagenome 023_LJL collection_date 2014-08-11 env_biome Skin Tissue env_feature Skin Tissue env_material Skin Tissue geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 52 BMI 30.3 Body_weight_kg 69.1 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 0 Parity 0 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis IDC If_other_please_specify_2 NO_INPUT Date_of_surgery 8/11/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 13_21_00 incision_time 13_50_00 closure_time 15_49_00 specimen_time 15_10_00 time_from_incision_to_specimen 80 Distance_of_specimen_from_nipple 5 dfn_cat __2_but_within_5 Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 4 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ DCIS If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1a Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IA ER_status _75_ PR_status 26-50_ HER2 2_ HER2_FISH Not_Amplified Invasive_Grade II Grade_for_DCIS NO_INPUT Age_menopause 50 years_since_menopause 2 days_since_last_period NO_INPUT days_biop_to_surg 42 min_abx_to_specimen 109 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 33-54 agecat_2 45-55 simple_id 23 histology_cat InvCa t2specimen_cat 61-90min bmi_cat 30_ her2pos 0 any_children 0 enrolltime 3 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593469 SAMN05441206 646099 human metagenome 002_JMR collection_date 2014-04-09 env_biome Skin Tissue env_feature Skin Tissue env_material Skin Tissue geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/22/2014 Custom_Index TTCGCGTGAAAC Data_Collection_Vers MCS_v2.4.1.3 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-A9MD5 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.3.32 Run_Folder 140722_M00710_0163_000000000-A9MD5 Sample_Concentration 3.69 Sample_Volume 100 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 163 Sequencing_Run_Type MiSeq_PEIn_300_Run Pool_Name NO_INPUT batch 1 Age 63 BMI 27.2 Body_weight_kg 78.7 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 1 Parity 1 Year_of_last_parity NO_INPUT Breastfed_ever No How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing BRCA_1/2_negative Family_history_of_breast_cancer 1_first_degree_relative Preoperative_diagnosis IDC If_other_please_specify_2 NO_INPUT Date_of_surgery 4/9/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 16_17_00 incision_time 16_30_00 closure_time 18_19_00 specimen_time 17_57_00 time_from_incision_to_specimen 87 Distance_of_specimen_from_nipple 9 dfn_cat __5_cm Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 5 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ DCIS If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1a Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IA ER_status _75_ PR_status _75_ HER2 3_ HER2_FISH Not_Performed Invasive_Grade II Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period NO_INPUT days_biop_to_surg 19 min_abx_to_specimen 100 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 0 dist_nipple_gt2 1 agecat_1 55-64 agecat_2 56_ simple_id 2 histology_cat InvCa t2specimen_cat 61-90min bmi_cat 25-29.9 her2pos 1 any_children 1 enrolltime 1 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593470 SAMN05441260 646099 human metagenome 025_ERS collection_date 2014-08-01 env_biome Breast env_feature Breast env_material Breast geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 84 BMI 27.7 Body_weight_kg 67.9 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 4 Parity 4 Year_of_last_parity NO_INPUT Breastfed_ever No How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis IDC If_other_please_specify_2 NO_INPUT Date_of_surgery 8/1/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 11_26_00 incision_time 12_03_00 closure_time 16_05_00 specimen_time 15_29_00 time_from_incision_to_specimen 206 Distance_of_specimen_from_nipple 3 dfn_cat __2_but_within_5 Breast_operation WLE Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ DCIS If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T2 Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IIA ER_status _75_ PR_status _75_ HER2 0 HER2_FISH Not_Performed Invasive_Grade I Grade_for_DCIS NO_INPUT Age_menopause 56 years_since_menopause 28 days_since_last_period NO_INPUT days_biop_to_surg 29 min_abx_to_specimen 243 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 75_ agecat_2 56_ simple_id 25 histology_cat InvCa t2specimen_cat _120min bmi_cat 25-29.9 her2pos 0 any_children 1 enrolltime 3 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593471 SAMN05441261 646099 human metagenome 025_ERS collection_date 2014-07-31 env_biome Buccal Cells env_feature Buccal Cells env_material Buccal Cells geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/2/2015 Custom_Index TCATTCCAAACG Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AFV88 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150702_M00710_0038_000000000-AFV88 Sample_Concentration 0.9 Sample_Volume 50 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 38 Sequencing_Run_Type MiSeq_PE_300_Run Pool_Name Hieken1_060815 batch 3 Age 84 BMI 27.7 Body_weight_kg 67.9 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 4 Parity 4 Year_of_last_parity NO_INPUT Breastfed_ever No How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis IDC If_other_please_specify_2 NO_INPUT Date_of_surgery 8/1/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 11_26_00 incision_time 12_03_00 closure_time 16_05_00 specimen_time 15_29_00 time_from_incision_to_specimen 206 Distance_of_specimen_from_nipple 3 dfn_cat __2_but_within_5 Breast_operation WLE Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ DCIS If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T2 Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IIA ER_status _75_ PR_status _75_ HER2 0 HER2_FISH Not_Performed Invasive_Grade I Grade_for_DCIS NO_INPUT Age_menopause 56 years_since_menopause 28 days_since_last_period NO_INPUT days_biop_to_surg 29 min_abx_to_specimen 243 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 75_ agecat_2 56_ simple_id 25 histology_cat InvCa t2specimen_cat _120min bmi_cat 25-29.9 her2pos 0 any_children 1 enrolltime 3 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593472 SAMN05441262 646099 human metagenome 025_ERS collection_date 2014-08-01 env_biome Skin Swab env_feature Skin Swab env_material Skin Swab geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/2/2015 Custom_Index CCGAACTGGACA Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AFV88 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150702_M00710_0038_000000000-AFV88 Sample_Concentration 0.9 Sample_Volume 50 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 38 Sequencing_Run_Type MiSeq_PE_300_Run Pool_Name Hieken1_060815 batch 3 Age 84 BMI 27.7 Body_weight_kg 67.9 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 4 Parity 4 Year_of_last_parity NO_INPUT Breastfed_ever No How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis IDC If_other_please_specify_2 NO_INPUT Date_of_surgery 8/1/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 11_26_00 incision_time 12_03_00 closure_time 16_05_00 specimen_time 15_29_00 time_from_incision_to_specimen 206 Distance_of_specimen_from_nipple 3 dfn_cat __2_but_within_5 Breast_operation WLE Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ DCIS If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T2 Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IIA ER_status _75_ PR_status _75_ HER2 0 HER2_FISH Not_Performed Invasive_Grade I Grade_for_DCIS NO_INPUT Age_menopause 56 years_since_menopause 28 days_since_last_period NO_INPUT days_biop_to_surg 29 min_abx_to_specimen 243 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 75_ agecat_2 56_ simple_id 25 histology_cat InvCa t2specimen_cat _120min bmi_cat 25-29.9 her2pos 0 any_children 1 enrolltime 3 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593473 SAMN05441263 646099 human metagenome 025_ERS collection_date 2014-08-01 env_biome Skin Tissue env_feature Skin Tissue env_material Skin Tissue geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 84 BMI 27.7 Body_weight_kg 67.9 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 4 Parity 4 Year_of_last_parity NO_INPUT Breastfed_ever No How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis IDC If_other_please_specify_2 NO_INPUT Date_of_surgery 8/1/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 11_26_00 incision_time 12_03_00 closure_time 16_05_00 specimen_time 15_29_00 time_from_incision_to_specimen 206 Distance_of_specimen_from_nipple 3 dfn_cat __2_but_within_5 Breast_operation WLE Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ DCIS If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T2 Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IIA ER_status _75_ PR_status _75_ HER2 0 HER2_FISH Not_Performed Invasive_Grade I Grade_for_DCIS NO_INPUT Age_menopause 56 years_since_menopause 28 days_since_last_period NO_INPUT days_biop_to_surg 29 min_abx_to_specimen 243 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 75_ agecat_2 56_ simple_id 25 histology_cat InvCa t2specimen_cat _120min bmi_cat 25-29.9 her2pos 0 any_children 1 enrolltime 3 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593474 SAMN05441264 646099 human metagenome 026_SMH collection_date 2014-08-05 env_biome Breast env_feature Breast env_material Breast geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 75 BMI 29.4 Body_weight_kg 73.5 Weight_category 1 Smoker_status Former_smoker Or_if_exact_date_unknown_choose _6_weeks Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 5 Parity 5 Year_of_last_parity NO_INPUT Breastfed_ever No How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis IDC If_other_please_specify_2 NO_INPUT Date_of_surgery 8/5/2014 Preoperative_Hibiclens_wash_doc Yes Preoperative_skin_prep Other Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 13_45_00 incision_time 13_58_00 closure_time 15_55_00 specimen_time 15_30_00 time_from_incision_to_specimen 92 Distance_of_specimen_from_nipple 2 dfn_cat __1_but_within_2 Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 3 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ DCIS If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1c Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IA ER_status _75_ PR_status _75_ HER2 1_ HER2_FISH Not_Performed Invasive_Grade II Grade_for_DCIS NO_INPUT Age_menopause 42 years_since_menopause 33 days_since_last_period NO_INPUT days_biop_to_surg 39 min_abx_to_specimen 105 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 1 dist_nipple_gt2 0 agecat_1 75_ agecat_2 56_ simple_id 26 histology_cat InvCa t2specimen_cat 91-120mi bmi_cat 25-29.9 her2pos 0 any_children 1 enrolltime 3 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593475 SAMN05441265 646099 human metagenome 026_SMH collection_date 2014-08-04 env_biome Buccal Cells env_feature Buccal Cells env_material Buccal Cells geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 75 BMI 29.4 Body_weight_kg 73.5 Weight_category 1 Smoker_status Former_smoker Or_if_exact_date_unknown_choose _6_weeks Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 5 Parity 5 Year_of_last_parity NO_INPUT Breastfed_ever No How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis IDC If_other_please_specify_2 NO_INPUT Date_of_surgery 8/5/2014 Preoperative_Hibiclens_wash_doc Yes Preoperative_skin_prep Other Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 13_45_00 incision_time 13_58_00 closure_time 15_55_00 specimen_time 15_30_00 time_from_incision_to_specimen 92 Distance_of_specimen_from_nipple 2 dfn_cat __1_but_within_2 Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 3 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ DCIS If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1c Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IA ER_status _75_ PR_status _75_ HER2 1_ HER2_FISH Not_Performed Invasive_Grade II Grade_for_DCIS NO_INPUT Age_menopause 42 years_since_menopause 33 days_since_last_period NO_INPUT days_biop_to_surg 39 min_abx_to_specimen 105 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 1 dist_nipple_gt2 0 agecat_1 75_ agecat_2 56_ simple_id 26 histology_cat InvCa t2specimen_cat 91-120mi bmi_cat 25-29.9 her2pos 0 any_children 1 enrolltime 3 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593476 SAMN05441266 646099 human metagenome 027_DRM collection_date 2014-08-11 env_biome Breast env_feature Breast env_material Breast geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 48 BMI 20.7 Body_weight_kg 50.4 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 2 Parity 2 Year_of_last_parity 1993 Breastfed_ever Yes How_long_breastfed_cumulative One_year_or_more Menopausal_status Peri-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer 2nd_degree_or_greater_relative Preoperative_diagnosis Flat_epithelial_atypia If_other_please_specify_2 NO_INPUT Date_of_surgery 8/11/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 8_53_00 incision_time 9_13_00 closure_time 10_29_00 specimen_time 10_08_00 time_from_incision_to_specimen 55 Distance_of_specimen_from_nipple 7 dfn_cat __5_cm Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ Flat_epithelial_atypia Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period NO_INPUT days_biop_to_surg 10 min_abx_to_specimen 75 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail Flat_epithelial_atypia BBD_Category PD bxtosx_gt28days 0 dist_nipple_gt2 1 agecat_1 33-54 agecat_2 45-55 simple_id 27 histology_cat BBD_non_atypia t2specimen_cat 31-60min bmi_cat 18.5-24.9 her2pos NO_INPUT any_children 1 enrolltime 3 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593477 SAMN05441267 646099 human metagenome 027_DRM collection_date 2014-08-07 env_biome Buccal Cells env_feature Buccal Cells env_material Buccal Cells geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 48 BMI 20.7 Body_weight_kg 50.4 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 2 Parity 2 Year_of_last_parity 1993 Breastfed_ever Yes How_long_breastfed_cumulative One_year_or_more Menopausal_status Peri-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer 2nd_degree_or_greater_relative Preoperative_diagnosis Flat_epithelial_atypia If_other_please_specify_2 NO_INPUT Date_of_surgery 8/11/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 8_53_00 incision_time 9_13_00 closure_time 10_29_00 specimen_time 10_08_00 time_from_incision_to_specimen 55 Distance_of_specimen_from_nipple 7 dfn_cat __5_cm Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ Flat_epithelial_atypia Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period NO_INPUT days_biop_to_surg 10 min_abx_to_specimen 75 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail Flat_epithelial_atypia BBD_Category PD bxtosx_gt28days 0 dist_nipple_gt2 1 agecat_1 33-54 agecat_2 45-55 simple_id 27 histology_cat BBD_non_atypia t2specimen_cat 31-60min bmi_cat 18.5-24.9 her2pos NO_INPUT any_children 1 enrolltime 3 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593478 SAMN05441268 646099 human metagenome 027_DRM collection_date 2014-08-11 env_biome Skin Swab env_feature Skin Swab env_material Skin Swab geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/2/2015 Custom_Index GCATTTGAGGGC Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AFV88 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150702_M00710_0038_000000000-AFV88 Sample_Concentration 0.9 Sample_Volume 50 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 38 Sequencing_Run_Type MiSeq_PE_300_Run Pool_Name Hieken1_060815 batch 3 Age 48 BMI 20.7 Body_weight_kg 50.4 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 2 Parity 2 Year_of_last_parity 1993 Breastfed_ever Yes How_long_breastfed_cumulative One_year_or_more Menopausal_status Peri-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer 2nd_degree_or_greater_relative Preoperative_diagnosis Flat_epithelial_atypia If_other_please_specify_2 NO_INPUT Date_of_surgery 8/11/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 8_53_00 incision_time 9_13_00 closure_time 10_29_00 specimen_time 10_08_00 time_from_incision_to_specimen 55 Distance_of_specimen_from_nipple 7 dfn_cat __5_cm Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ Flat_epithelial_atypia Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period NO_INPUT days_biop_to_surg 10 min_abx_to_specimen 75 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail Flat_epithelial_atypia BBD_Category PD bxtosx_gt28days 0 dist_nipple_gt2 1 agecat_1 33-54 agecat_2 45-55 simple_id 27 histology_cat BBD_non_atypia t2specimen_cat 31-60min bmi_cat 18.5-24.9 her2pos NO_INPUT any_children 1 enrolltime 3 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593479 SAMN05441269 646099 human metagenome 027_DRM collection_date 2014-08-11 env_biome Skin Tissue env_feature Skin Tissue env_material Skin Tissue geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 48 BMI 20.7 Body_weight_kg 50.4 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 2 Parity 2 Year_of_last_parity 1993 Breastfed_ever Yes How_long_breastfed_cumulative One_year_or_more Menopausal_status Peri-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer 2nd_degree_or_greater_relative Preoperative_diagnosis Flat_epithelial_atypia If_other_please_specify_2 NO_INPUT Date_of_surgery 8/11/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 8_53_00 incision_time 9_13_00 closure_time 10_29_00 specimen_time 10_08_00 time_from_incision_to_specimen 55 Distance_of_specimen_from_nipple 7 dfn_cat __5_cm Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ Flat_epithelial_atypia Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period NO_INPUT days_biop_to_surg 10 min_abx_to_specimen 75 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail Flat_epithelial_atypia BBD_Category PD bxtosx_gt28days 0 dist_nipple_gt2 1 agecat_1 33-54 agecat_2 45-55 simple_id 27 histology_cat BBD_non_atypia t2specimen_cat 31-60min bmi_cat 18.5-24.9 her2pos NO_INPUT any_children 1 enrolltime 3 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593480 SAMN05441207 646099 human metagenome 004_CLN collection_date 2014-04-17 env_biome Breast env_feature Breast env_material Breast geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/22/2014 Custom_Index TGCAGAGCTCAG Data_Collection_Vers MCS_v2.4.1.3 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-A9MD5 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.3.32 Run_Folder 140722_M00710_0163_000000000-A9MD5 Sample_Concentration 3.69 Sample_Volume 100 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 163 Sequencing_Run_Type MiSeq_PEIn_300_Run Pool_Name NO_INPUT batch 1 Age 60 BMI 34.7 Body_weight_kg 85 Weight_category 2 Smoker_status Former_smoker Or_if_exact_date_unknown_choose _6_weeks Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 2 Parity 2 Year_of_last_parity NO_INPUT Breastfed_ever Yes How_long_breastfed_cumulative One_year_or_more Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer 2nd_degree_or_greater_relative Preoperative_diagnosis DCIS If_other_please_specify_2 NO_INPUT Date_of_surgery 4/17/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 2000 abx_time 11_20_00 incision_time 11_45_00 closure_time 13_57_00 specimen_time 12_20_00 time_from_incision_to_specimen 35 Distance_of_specimen_from_nipple 6 dfn_cat __5_cm Breast_operation WLE Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Malignant Final_pathology_histology_ DCIS Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage Tis Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage 0 ER_status _75_ PR_status _75_ HER2 N/A HER2_FISH Not_Performed Invasive_Grade NO_INPUT Grade_for_DCIS Low Age_menopause 49 years_since_menopause 11 days_since_last_period NO_INPUT days_biop_to_surg 36 min_abx_to_specimen 60 erpos 1 prpos 1 Final_histology_more_detail DCIS BBD_Category NO_INPUT bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 55-64 agecat_2 56_ simple_id 4 histology_cat DCIS t2specimen_cat 31-60min bmi_cat 30_ her2pos NO_INPUT any_children 1 enrolltime 1 histology_cat2 DCIS BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593481 SAMN05441270 646099 human metagenome 029_IKP collection_date 2014-08-29 env_biome Breast env_feature Breast env_material Breast geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 66 BMI 20.5 Body_weight_kg 61.1 Weight_category 1 Smoker_status Former_smoker Or_if_exact_date_unknown_choose _6_weeks Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 3 Parity 3 Year_of_last_parity 200 Breastfed_ever No How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis IDC If_other_please_specify_2 NO_INPUT Date_of_surgery 8/29/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 12_56_00 incision_time 13_09_00 closure_time 15_46_00 specimen_time 14_30_00 time_from_incision_to_specimen 81 Distance_of_specimen_from_nipple 0.5 dfn_cat within_1_cm Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 4 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1c Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IA ER_status _75_ PR_status 51-75_ HER2 2_ HER2_FISH Amplified Invasive_Grade II Grade_for_DCIS NO_INPUT Age_menopause 51 years_since_menopause 15 days_since_last_period NO_INPUT days_biop_to_surg 30 min_abx_to_specimen 94 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 1 dist_nipple_gt2 0 agecat_1 65-74 agecat_2 56_ simple_id 29 histology_cat InvCa t2specimen_cat 61-90min bmi_cat 18.5-24.9 her2pos 1 any_children 1 enrolltime 3 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593482 SAMN05441272 646099 human metagenome 029_IKP collection_date 2014-08-29 env_biome Skin Swab env_feature Skin Swab env_material Skin Swab geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/2/2015 Custom_Index ATAATGCACGCC Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AFV88 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150702_M00710_0038_000000000-AFV88 Sample_Concentration 0.9 Sample_Volume 50 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 38 Sequencing_Run_Type MiSeq_PE_300_Run Pool_Name Hieken1_060815 batch 3 Age 66 BMI 20.5 Body_weight_kg 61.1 Weight_category 1 Smoker_status Former_smoker Or_if_exact_date_unknown_choose _6_weeks Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 3 Parity 3 Year_of_last_parity 200 Breastfed_ever No How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis IDC If_other_please_specify_2 NO_INPUT Date_of_surgery 8/29/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 12_56_00 incision_time 13_09_00 closure_time 15_46_00 specimen_time 14_30_00 time_from_incision_to_specimen 81 Distance_of_specimen_from_nipple 0.5 dfn_cat within_1_cm Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 4 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1c Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IA ER_status _75_ PR_status 51-75_ HER2 2_ HER2_FISH Amplified Invasive_Grade II Grade_for_DCIS NO_INPUT Age_menopause 51 years_since_menopause 15 days_since_last_period NO_INPUT days_biop_to_surg 30 min_abx_to_specimen 94 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 1 dist_nipple_gt2 0 agecat_1 65-74 agecat_2 56_ simple_id 29 histology_cat InvCa t2specimen_cat 61-90min bmi_cat 18.5-24.9 her2pos 1 any_children 1 enrolltime 3 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593483 SAMN05441271 646099 human metagenome 029_IKP collection_date 2014-08-25 env_biome Buccal Cells env_feature Buccal Cells env_material Buccal Cells geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/2/2015 Custom_Index AAGCCAGATAGA Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AFV88 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150702_M00710_0038_000000000-AFV88 Sample_Concentration 0.9 Sample_Volume 50 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 38 Sequencing_Run_Type MiSeq_PE_300_Run Pool_Name Hieken1_060815 batch 3 Age 66 BMI 20.5 Body_weight_kg 61.1 Weight_category 1 Smoker_status Former_smoker Or_if_exact_date_unknown_choose _6_weeks Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 3 Parity 3 Year_of_last_parity 200 Breastfed_ever No How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis IDC If_other_please_specify_2 NO_INPUT Date_of_surgery 8/29/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 12_56_00 incision_time 13_09_00 closure_time 15_46_00 specimen_time 14_30_00 time_from_incision_to_specimen 81 Distance_of_specimen_from_nipple 0.5 dfn_cat within_1_cm Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 4 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1c Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IA ER_status _75_ PR_status 51-75_ HER2 2_ HER2_FISH Amplified Invasive_Grade II Grade_for_DCIS NO_INPUT Age_menopause 51 years_since_menopause 15 days_since_last_period NO_INPUT days_biop_to_surg 30 min_abx_to_specimen 94 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 1 dist_nipple_gt2 0 agecat_1 65-74 agecat_2 56_ simple_id 29 histology_cat InvCa t2specimen_cat 61-90min bmi_cat 18.5-24.9 her2pos 1 any_children 1 enrolltime 3 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593484 SAMN05441273 646099 human metagenome 029_IKP collection_date 2014-08-29 env_biome Skin Tissue env_feature Skin Tissue env_material Skin Tissue geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 66 BMI 20.5 Body_weight_kg 61.1 Weight_category 1 Smoker_status Former_smoker Or_if_exact_date_unknown_choose _6_weeks Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 3 Parity 3 Year_of_last_parity 200 Breastfed_ever No How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis IDC If_other_please_specify_2 NO_INPUT Date_of_surgery 8/29/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 12_56_00 incision_time 13_09_00 closure_time 15_46_00 specimen_time 14_30_00 time_from_incision_to_specimen 81 Distance_of_specimen_from_nipple 0.5 dfn_cat within_1_cm Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 4 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1c Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IA ER_status _75_ PR_status 51-75_ HER2 2_ HER2_FISH Amplified Invasive_Grade II Grade_for_DCIS NO_INPUT Age_menopause 51 years_since_menopause 15 days_since_last_period NO_INPUT days_biop_to_surg 30 min_abx_to_specimen 94 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 1 dist_nipple_gt2 0 agecat_1 65-74 agecat_2 56_ simple_id 29 histology_cat InvCa t2specimen_cat 61-90min bmi_cat 18.5-24.9 her2pos 1 any_children 1 enrolltime 3 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593485 SAMN05441274 646099 human metagenome 030_JLB collection_date 2014-09-03 env_biome Breast env_feature Breast env_material Breast geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 76 BMI 24.1 Body_weight_kg 65.9 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 1 Prior_ipsilateral_breast_surgery No Gravidity 4 Parity 2 Year_of_last_parity NO_INPUT Breastfed_ever Yes How_long_breastfed_cumulative One_year_or_more Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer 2nd_degree_or_greater_relative Preoperative_diagnosis IDC If_other_please_specify_2 NO_INPUT Date_of_surgery 9/3/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 14_46_00 incision_time 14_48_00 closure_time 17_06_00 specimen_time 16_12_00 time_from_incision_to_specimen 84 Distance_of_specimen_from_nipple 9 dfn_cat __5_cm Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 2 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ DCIS If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1a Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IA ER_status _75_ PR_status 51-75_ HER2 2_ HER2_FISH Amplified Invasive_Grade I Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period NO_INPUT days_biop_to_surg 21 min_abx_to_specimen 86 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 0 dist_nipple_gt2 1 agecat_1 75_ agecat_2 56_ simple_id 30 histology_cat InvCa t2specimen_cat 61-90min bmi_cat 18.5-24.9 her2pos 1 any_children 1 enrolltime 3 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593486 SAMN05441275 646099 human metagenome 030_JLB collection_date 2014-08-26 env_biome Buccal Cells env_feature Buccal Cells env_material Buccal Cells geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/2/2015 Custom_Index CCGTTTGTTTCC Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AFV88 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150702_M00710_0038_000000000-AFV88 Sample_Concentration 0.9 Sample_Volume 50 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 38 Sequencing_Run_Type MiSeq_PE_300_Run Pool_Name Hieken1_060815 batch 3 Age 76 BMI 24.1 Body_weight_kg 65.9 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 1 Prior_ipsilateral_breast_surgery No Gravidity 4 Parity 2 Year_of_last_parity NO_INPUT Breastfed_ever Yes How_long_breastfed_cumulative One_year_or_more Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer 2nd_degree_or_greater_relative Preoperative_diagnosis IDC If_other_please_specify_2 NO_INPUT Date_of_surgery 9/3/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 14_46_00 incision_time 14_48_00 closure_time 17_06_00 specimen_time 16_12_00 time_from_incision_to_specimen 84 Distance_of_specimen_from_nipple 9 dfn_cat __5_cm Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 2 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ DCIS If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1a Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IA ER_status _75_ PR_status 51-75_ HER2 2_ HER2_FISH Amplified Invasive_Grade I Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period NO_INPUT days_biop_to_surg 21 min_abx_to_specimen 86 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 0 dist_nipple_gt2 1 agecat_1 75_ agecat_2 56_ simple_id 30 histology_cat InvCa t2specimen_cat 61-90min bmi_cat 18.5-24.9 her2pos 1 any_children 1 enrolltime 3 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593487 SAMN05441276 646099 human metagenome 030_JLB collection_date 2014-09-03 env_biome Skin Swab env_feature Skin Swab env_material Skin Swab geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/2/2015 Custom_Index CCAATATTGACC Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AFV88 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150702_M00710_0038_000000000-AFV88 Sample_Concentration 0.9 Sample_Volume 50 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 38 Sequencing_Run_Type MiSeq_PE_300_Run Pool_Name Hieken1_060815 batch 3 Age 76 BMI 24.1 Body_weight_kg 65.9 Weight_category 1 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 1 Prior_ipsilateral_breast_surgery No Gravidity 4 Parity 2 Year_of_last_parity NO_INPUT Breastfed_ever Yes How_long_breastfed_cumulative One_year_or_more Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer 2nd_degree_or_greater_relative Preoperative_diagnosis IDC If_other_please_specify_2 NO_INPUT Date_of_surgery 9/3/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 14_46_00 incision_time 14_48_00 closure_time 17_06_00 specimen_time 16_12_00 time_from_incision_to_specimen 84 Distance_of_specimen_from_nipple 9 dfn_cat __5_cm Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 2 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ DCIS If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1a Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IA ER_status _75_ PR_status 51-75_ HER2 2_ HER2_FISH Amplified Invasive_Grade I Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period NO_INPUT days_biop_to_surg 21 min_abx_to_specimen 86 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 0 dist_nipple_gt2 1 agecat_1 75_ agecat_2 56_ simple_id 30 histology_cat InvCa t2specimen_cat 61-90min bmi_cat 18.5-24.9 her2pos 1 any_children 1 enrolltime 3 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593488 SAMN05441277 646099 human metagenome 033_J-K collection_date 2014-09-18 env_biome Breast env_feature Breast env_material Breast geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 77 BMI 30.3 Body_weight_kg 81.4 Weight_category 2 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus Yes_NIDDM ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 0 Parity 0 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis IDC If_other_please_specify_2 NO_INPUT Date_of_surgery 9/18/2014 Preoperative_Hibiclens_wash_doc Yes Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 2000 abx_time 12_45_00 incision_time 12_50_00 closure_time 14_41_00 specimen_time 14_01_00 time_from_incision_to_specimen 71 Distance_of_specimen_from_nipple 8 dfn_cat __5_cm Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 2 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1c Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IIA ER_status _75_ PR_status _75_ HER2 Negative HER2_FISH Not_Performed Invasive_Grade II Grade_for_DCIS NO_INPUT Age_menopause 55 years_since_menopause 22 days_since_last_period NO_INPUT days_biop_to_surg 43 min_abx_to_specimen 76 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 75_ agecat_2 56_ simple_id 33 histology_cat InvCa t2specimen_cat 61-90min bmi_cat 30_ her2pos 0 any_children 0 enrolltime 4 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593489 SAMN05441278 646099 human metagenome 033_J-K collection_date 2014-09-03 env_biome Buccal Cells env_feature Buccal Cells env_material Buccal Cells geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/2/2015 Custom_Index TTGCATTTCGAG Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AFV88 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150702_M00710_0038_000000000-AFV88 Sample_Concentration 0.9 Sample_Volume 50 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 38 Sequencing_Run_Type MiSeq_PE_300_Run Pool_Name Hieken1_060815 batch 3 Age 77 BMI 30.3 Body_weight_kg 81.4 Weight_category 2 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus Yes_NIDDM ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 0 Parity 0 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis IDC If_other_please_specify_2 NO_INPUT Date_of_surgery 9/18/2014 Preoperative_Hibiclens_wash_doc Yes Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 2000 abx_time 12_45_00 incision_time 12_50_00 closure_time 14_41_00 specimen_time 14_01_00 time_from_incision_to_specimen 71 Distance_of_specimen_from_nipple 8 dfn_cat __5_cm Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 2 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1c Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IIA ER_status _75_ PR_status _75_ HER2 Negative HER2_FISH Not_Performed Invasive_Grade II Grade_for_DCIS NO_INPUT Age_menopause 55 years_since_menopause 22 days_since_last_period NO_INPUT days_biop_to_surg 43 min_abx_to_specimen 76 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 75_ agecat_2 56_ simple_id 33 histology_cat InvCa t2specimen_cat 61-90min bmi_cat 30_ her2pos 0 any_children 0 enrolltime 4 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593490 SAMN05441279 646099 human metagenome 033_J-K collection_date 2014-09-18 env_biome Skin Swab env_feature Skin Swab env_material Skin Swab geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/2/2015 Custom_Index AACGCTTTGGAC Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AFV88 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150702_M00710_0038_000000000-AFV88 Sample_Concentration 0.9 Sample_Volume 50 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 38 Sequencing_Run_Type MiSeq_PE_300_Run Pool_Name Hieken1_060815 batch 3 Age 77 BMI 30.3 Body_weight_kg 81.4 Weight_category 2 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus Yes_NIDDM ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 0 Parity 0 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis IDC If_other_please_specify_2 NO_INPUT Date_of_surgery 9/18/2014 Preoperative_Hibiclens_wash_doc Yes Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 2000 abx_time 12_45_00 incision_time 12_50_00 closure_time 14_41_00 specimen_time 14_01_00 time_from_incision_to_specimen 71 Distance_of_specimen_from_nipple 8 dfn_cat __5_cm Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 2 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1c Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IIA ER_status _75_ PR_status _75_ HER2 Negative HER2_FISH Not_Performed Invasive_Grade II Grade_for_DCIS NO_INPUT Age_menopause 55 years_since_menopause 22 days_since_last_period NO_INPUT days_biop_to_surg 43 min_abx_to_specimen 76 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 75_ agecat_2 56_ simple_id 33 histology_cat InvCa t2specimen_cat 61-90min bmi_cat 30_ her2pos 0 any_children 0 enrolltime 4 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593491 SAMN05441208 646099 human metagenome 004_CLN collection_date 2014-04-16 env_biome Buccal Cells env_feature Buccal Cells env_material Buccal Cells geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/22/2014 Custom_Index AGGTAGTCCTCA Data_Collection_Vers MCS_v2.4.1.3 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-A9MD5 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.3.32 Run_Folder 140722_M00710_0163_000000000-A9MD5 Sample_Concentration 3.69 Sample_Volume 100 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 163 Sequencing_Run_Type MiSeq_PEIn_300_Run Pool_Name NO_INPUT batch 1 Age 60 BMI 34.7 Body_weight_kg 85 Weight_category 2 Smoker_status Former_smoker Or_if_exact_date_unknown_choose _6_weeks Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 2 Parity 2 Year_of_last_parity NO_INPUT Breastfed_ever Yes How_long_breastfed_cumulative One_year_or_more Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer 2nd_degree_or_greater_relative Preoperative_diagnosis DCIS If_other_please_specify_2 NO_INPUT Date_of_surgery 4/17/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 2000 abx_time 11_20_00 incision_time 11_45_00 closure_time 13_57_00 specimen_time 12_20_00 time_from_incision_to_specimen 35 Distance_of_specimen_from_nipple 6 dfn_cat __5_cm Breast_operation WLE Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Malignant Final_pathology_histology_ DCIS Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage Tis Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage 0 ER_status _75_ PR_status _75_ HER2 N/A HER2_FISH Not_Performed Invasive_Grade NO_INPUT Grade_for_DCIS Low Age_menopause 49 years_since_menopause 11 days_since_last_period NO_INPUT days_biop_to_surg 36 min_abx_to_specimen 60 erpos 1 prpos 1 Final_histology_more_detail DCIS BBD_Category NO_INPUT bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 55-64 agecat_2 56_ simple_id 4 histology_cat DCIS t2specimen_cat 31-60min bmi_cat 30_ her2pos NO_INPUT any_children 1 enrolltime 1 histology_cat2 DCIS BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593492 SAMN05441280 646099 human metagenome 033_J-K collection_date 2014-09-18 env_biome Skin Tissue env_feature Skin Tissue env_material Skin Tissue geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 77 BMI 30.3 Body_weight_kg 81.4 Weight_category 2 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus Yes_NIDDM ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 0 Parity 0 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis IDC If_other_please_specify_2 NO_INPUT Date_of_surgery 9/18/2014 Preoperative_Hibiclens_wash_doc Yes Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 2000 abx_time 12_45_00 incision_time 12_50_00 closure_time 14_41_00 specimen_time 14_01_00 time_from_incision_to_specimen 71 Distance_of_specimen_from_nipple 8 dfn_cat __5_cm Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 2 Number_of_positive_lymph_nodes 0 final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1c Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage IIA ER_status _75_ PR_status _75_ HER2 Negative HER2_FISH Not_Performed Invasive_Grade II Grade_for_DCIS NO_INPUT Age_menopause 55 years_since_menopause 22 days_since_last_period NO_INPUT days_biop_to_surg 43 min_abx_to_specimen 76 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 75_ agecat_2 56_ simple_id 33 histology_cat InvCa t2specimen_cat 61-90min bmi_cat 30_ her2pos 0 any_children 0 enrolltime 4 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593493 SAMN05441281 646099 human metagenome 036_TAF collection_date 2014-09-11 env_biome Breast env_feature Breast env_material Breast geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 51 BMI 31.4 Body_weight_kg 84.2 Weight_category 2 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 2 Parity 2 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis ADP If_other_please_specify_2 NO_INPUT Date_of_surgery 9/11/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 2000 abx_time 13_40_00 incision_time 13_57_00 closure_time 15_08_00 specimen_time 14_58_00 time_from_incision_to_specimen 61 Distance_of_specimen_from_nipple 8 dfn_cat __5_cm Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ Benign Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause 49 years_since_menopause 2 days_since_last_period NO_INPUT days_biop_to_surg 37 min_abx_to_specimen 78 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail Benign_ADP_on_core_NP_disease_on_excision BBD_Category NP bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 33-54 agecat_2 45-55 simple_id 36 histology_cat BBD_non_atypia t2specimen_cat 61-90min bmi_cat 30_ her2pos NO_INPUT any_children 1 enrolltime 4 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593494 SAMN05441282 646099 human metagenome 036_TAF collection_date 2014-09-08 env_biome Buccal Cells env_feature Buccal Cells env_material Buccal Cells geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/2/2015 Custom_Index TGAATTAGGAGG Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AFV88 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150702_M00710_0038_000000000-AFV88 Sample_Concentration 0.9 Sample_Volume 50 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 38 Sequencing_Run_Type MiSeq_PE_300_Run Pool_Name Hieken1_060815 batch 3 Age 51 BMI 31.4 Body_weight_kg 84.2 Weight_category 2 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 2 Parity 2 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis ADP If_other_please_specify_2 NO_INPUT Date_of_surgery 9/11/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 2000 abx_time 13_40_00 incision_time 13_57_00 closure_time 15_08_00 specimen_time 14_58_00 time_from_incision_to_specimen 61 Distance_of_specimen_from_nipple 8 dfn_cat __5_cm Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ Benign Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause 49 years_since_menopause 2 days_since_last_period NO_INPUT days_biop_to_surg 37 min_abx_to_specimen 78 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail Benign_ADP_on_core_NP_disease_on_excision BBD_Category NP bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 33-54 agecat_2 45-55 simple_id 36 histology_cat BBD_non_atypia t2specimen_cat 61-90min bmi_cat 30_ her2pos NO_INPUT any_children 1 enrolltime 4 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593495 SAMN05441283 646099 human metagenome 036_TAF collection_date 2014-09-11 env_biome Skin Tissue env_feature Skin Tissue env_material Skin Tissue geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 51 BMI 31.4 Body_weight_kg 84.2 Weight_category 2 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 2 Parity 2 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis ADP If_other_please_specify_2 NO_INPUT Date_of_surgery 9/11/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 2000 abx_time 13_40_00 incision_time 13_57_00 closure_time 15_08_00 specimen_time 14_58_00 time_from_incision_to_specimen 61 Distance_of_specimen_from_nipple 8 dfn_cat __5_cm Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ Benign Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause 49 years_since_menopause 2 days_since_last_period NO_INPUT days_biop_to_surg 37 min_abx_to_specimen 78 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail Benign_ADP_on_core_NP_disease_on_excision BBD_Category NP bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 33-54 agecat_2 45-55 simple_id 36 histology_cat BBD_non_atypia t2specimen_cat 61-90min bmi_cat 30_ her2pos NO_INPUT any_children 1 enrolltime 4 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593496 SAMN05441284 646099 human metagenome 038_TOR collection_date 2014-09-12 env_biome Breast env_feature Breast env_material Breast geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 49 BMI 40.4 Body_weight_kg 109 Weight_category 2 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 2 Parity 2 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Pre-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer 2nd_degree_or_greater_relative Preoperative_diagnosis ADP If_other_please_specify_2 NO_INPUT Date_of_surgery 9/12/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1800 abx_time 16_20_00 incision_time 16_30_00 closure_time 17_36_00 specimen_time 17_12_00 time_from_incision_to_specimen 42 Distance_of_specimen_from_nipple 9 dfn_cat __5_cm Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ Benign Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period NO_INPUT days_biop_to_surg 52 min_abx_to_specimen 52 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail Benign BBD_Category NP bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 33-54 agecat_2 45-55 simple_id 37 histology_cat BBD_non_atypia t2specimen_cat 31-60min bmi_cat 30_ her2pos NO_INPUT any_children 1 enrolltime 4 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593497 SAMN05441285 646099 human metagenome 038_TOR collection_date 2014-09-11 env_biome Buccal Cells env_feature Buccal Cells env_material Buccal Cells geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/2/2015 Custom_Index GCTGGCCATGAA Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AFV88 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150702_M00710_0038_000000000-AFV88 Sample_Concentration 0.9 Sample_Volume 50 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 38 Sequencing_Run_Type MiSeq_PE_300_Run Pool_Name Hieken1_060815 batch 3 Age 49 BMI 40.4 Body_weight_kg 109 Weight_category 2 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 2 Parity 2 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Pre-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer 2nd_degree_or_greater_relative Preoperative_diagnosis ADP If_other_please_specify_2 NO_INPUT Date_of_surgery 9/12/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1800 abx_time 16_20_00 incision_time 16_30_00 closure_time 17_36_00 specimen_time 17_12_00 time_from_incision_to_specimen 42 Distance_of_specimen_from_nipple 9 dfn_cat __5_cm Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ Benign Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period NO_INPUT days_biop_to_surg 52 min_abx_to_specimen 52 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail Benign BBD_Category NP bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 33-54 agecat_2 45-55 simple_id 37 histology_cat BBD_non_atypia t2specimen_cat 31-60min bmi_cat 30_ her2pos NO_INPUT any_children 1 enrolltime 4 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593498 SAMN05441286 646099 human metagenome 038_TOR collection_date 2014-09-12 env_biome Skin Swab env_feature Skin Swab env_material Skin Swab geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/2/2015 Custom_Index TGAGACGTGCTT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AFV88 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150702_M00710_0038_000000000-AFV88 Sample_Concentration 0.9 Sample_Volume 50 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 38 Sequencing_Run_Type MiSeq_PE_300_Run Pool_Name Hieken1_060815 batch 3 Age 49 BMI 40.4 Body_weight_kg 109 Weight_category 2 Smoker_status Never_smoker Or_if_exact_date_unknown_choose NO_INPUT Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 2 Parity 2 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Pre-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer 2nd_degree_or_greater_relative Preoperative_diagnosis ADP If_other_please_specify_2 NO_INPUT Date_of_surgery 9/12/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1800 abx_time 16_20_00 incision_time 16_30_00 closure_time 17_36_00 specimen_time 17_12_00 time_from_incision_to_specimen 42 Distance_of_specimen_from_nipple 9 dfn_cat __5_cm Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ Benign Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period NO_INPUT days_biop_to_surg 52 min_abx_to_specimen 52 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail Benign BBD_Category NP bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 33-54 agecat_2 45-55 simple_id 37 histology_cat BBD_non_atypia t2specimen_cat 31-60min bmi_cat 30_ her2pos NO_INPUT any_children 1 enrolltime 4 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593499 SAMN05441288 646099 human metagenome 042_VAH collection_date 2014-09-29 env_biome Buccal Cells env_feature Buccal Cells env_material Buccal Cells geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 51 BMI 26.6 Body_weight_kg 72.6 Weight_category 1 Smoker_status Former_smoker Or_if_exact_date_unknown_choose _6_weeks Diabetes_mellitus No ASA_class 1 Prior_ipsilateral_breast_surgery No Gravidity 3 Parity 3 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Peri-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer 1_first_degree_relative Preoperative_diagnosis Flat_epithelial_atypia If_other_please_specify_2 NO_INPUT Date_of_surgery 10/31/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 12_52_00 incision_time 13_08_00 closure_time 14_51_00 specimen_time 14_20_00 time_from_incision_to_specimen 72 Distance_of_specimen_from_nipple 3.5 dfn_cat __2_but_within_5 Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ Flat_epithelial_atypia Secondary_Pathology_associated_ NO_INPUT If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period NO_INPUT days_biop_to_surg 45 min_abx_to_specimen 88 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail Flat_epithelial_atypia BBD_Category PD bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 33-54 agecat_2 45-55 simple_id 41 histology_cat BBD_non_atypia t2specimen_cat 61-90min bmi_cat 25-29.9 her2pos NO_INPUT any_children 1 enrolltime 5 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593500 SAMN05441287 646099 human metagenome 042_VAH collection_date 2014-10-03 env_biome Breast env_feature Breast env_material Breast geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 51 BMI 26.6 Body_weight_kg 72.6 Weight_category 1 Smoker_status Former_smoker Or_if_exact_date_unknown_choose _6_weeks Diabetes_mellitus No ASA_class 1 Prior_ipsilateral_breast_surgery No Gravidity 3 Parity 3 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Peri-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer 1_first_degree_relative Preoperative_diagnosis Flat_epithelial_atypia If_other_please_specify_2 NO_INPUT Date_of_surgery 10/31/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 12_52_00 incision_time 13_08_00 closure_time 14_51_00 specimen_time 14_20_00 time_from_incision_to_specimen 72 Distance_of_specimen_from_nipple 3.5 dfn_cat __2_but_within_5 Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ Flat_epithelial_atypia Secondary_Pathology_associated_ NO_INPUT If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period NO_INPUT days_biop_to_surg 45 min_abx_to_specimen 88 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail Flat_epithelial_atypia BBD_Category PD bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 33-54 agecat_2 45-55 simple_id 41 histology_cat BBD_non_atypia t2specimen_cat 61-90min bmi_cat 25-29.9 her2pos NO_INPUT any_children 1 enrolltime 5 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593501 SAMN05441289 646099 human metagenome 042_VAH collection_date 2014-10-03 env_biome Skin Swab env_feature Skin Swab env_material Skin Swab geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/2/2015 Custom_Index TAGATAGCAGGA Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AFV88 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150702_M00710_0038_000000000-AFV88 Sample_Concentration 0.9 Sample_Volume 50 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 38 Sequencing_Run_Type MiSeq_PE_300_Run Pool_Name Hieken1_060815 batch 3 Age 51 BMI 26.6 Body_weight_kg 72.6 Weight_category 1 Smoker_status Former_smoker Or_if_exact_date_unknown_choose _6_weeks Diabetes_mellitus No ASA_class 1 Prior_ipsilateral_breast_surgery No Gravidity 3 Parity 3 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Peri-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer 1_first_degree_relative Preoperative_diagnosis Flat_epithelial_atypia If_other_please_specify_2 NO_INPUT Date_of_surgery 10/31/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 12_52_00 incision_time 13_08_00 closure_time 14_51_00 specimen_time 14_20_00 time_from_incision_to_specimen 72 Distance_of_specimen_from_nipple 3.5 dfn_cat __2_but_within_5 Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ Flat_epithelial_atypia Secondary_Pathology_associated_ NO_INPUT If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period NO_INPUT days_biop_to_surg 45 min_abx_to_specimen 88 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail Flat_epithelial_atypia BBD_Category PD bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 33-54 agecat_2 45-55 simple_id 41 histology_cat BBD_non_atypia t2specimen_cat 61-90min bmi_cat 25-29.9 her2pos NO_INPUT any_children 1 enrolltime 5 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593502 SAMN05441209 646099 human metagenome 004_CLN collection_date 2014-04-17 env_biome Skin Swab env_feature Skin Swab env_material Skin Swab geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 2/13/2015 Custom_Index CCGTTCTACGTC Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-ADTR5 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150213_M00738_0017_000000000-ADTR5 Sample_Concentration 65 Sample_Volume 50 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 17 Sequencing_Run_Type MiSeq_PEIn_300_Run Pool_Name NO_INPUT batch 2 Age 60 BMI 34.7 Body_weight_kg 85 Weight_category 2 Smoker_status Former_smoker Or_if_exact_date_unknown_choose _6_weeks Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 2 Parity 2 Year_of_last_parity NO_INPUT Breastfed_ever Yes How_long_breastfed_cumulative One_year_or_more Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer 2nd_degree_or_greater_relative Preoperative_diagnosis DCIS If_other_please_specify_2 NO_INPUT Date_of_surgery 4/17/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 2000 abx_time 11_20_00 incision_time 11_45_00 closure_time 13_57_00 specimen_time 12_20_00 time_from_incision_to_specimen 35 Distance_of_specimen_from_nipple 6 dfn_cat __5_cm Breast_operation WLE Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Malignant Final_pathology_histology_ DCIS Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage Tis Pathologic_N_stage N0 Pathologic_M_stage M0 Pathologic_TNM_stage 0 ER_status _75_ PR_status _75_ HER2 N/A HER2_FISH Not_Performed Invasive_Grade NO_INPUT Grade_for_DCIS Low Age_menopause 49 years_since_menopause 11 days_since_last_period NO_INPUT days_biop_to_surg 36 min_abx_to_specimen 60 erpos 1 prpos 1 Final_histology_more_detail DCIS BBD_Category NO_INPUT bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 55-64 agecat_2 56_ simple_id 4 histology_cat DCIS t2specimen_cat 31-60min bmi_cat 30_ her2pos NO_INPUT any_children 1 enrolltime 1 histology_cat2 DCIS BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593503 SAMN05441290 646099 human metagenome 042_VAH collection_date 2014-10-03 env_biome Skin Tissue env_feature Skin Tissue env_material Skin Tissue geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 51 BMI 26.6 Body_weight_kg 72.6 Weight_category 1 Smoker_status Former_smoker Or_if_exact_date_unknown_choose _6_weeks Diabetes_mellitus No ASA_class 1 Prior_ipsilateral_breast_surgery No Gravidity 3 Parity 3 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Peri-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer 1_first_degree_relative Preoperative_diagnosis Flat_epithelial_atypia If_other_please_specify_2 NO_INPUT Date_of_surgery 10/31/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 12_52_00 incision_time 13_08_00 closure_time 14_51_00 specimen_time 14_20_00 time_from_incision_to_specimen 72 Distance_of_specimen_from_nipple 3.5 dfn_cat __2_but_within_5 Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ Flat_epithelial_atypia Secondary_Pathology_associated_ NO_INPUT If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period NO_INPUT days_biop_to_surg 45 min_abx_to_specimen 88 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail Flat_epithelial_atypia BBD_Category PD bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 33-54 agecat_2 45-55 simple_id 41 histology_cat BBD_non_atypia t2specimen_cat 61-90min bmi_cat 25-29.9 her2pos NO_INPUT any_children 1 enrolltime 5 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593504 SAMN05441291 646099 human metagenome 046_MAL collection_date 2014-10-21 env_biome Breast env_feature Breast env_material Breast geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 78 BMI 23.6 Body_weight_kg 65.9 Weight_category 1 Smoker_status Former_smoker Or_if_exact_date_unknown_choose _6_weeks Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 8 Parity 7 Year_of_last_parity NO_INPUT Breastfed_ever Yes How_long_breastfed_cumulative One_year_or_more Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis IMC If_other_please_specify_2 NO_INPUT Date_of_surgery 10/21/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Other Preop_antibiotic_dose_mg 1000 abx_time 8_11_00 incision_time 8_37_00 closure_time 10_17_00 specimen_time 9_50_00 time_from_incision_to_specimen 73 Distance_of_specimen_from_nipple 6 dfn_cat __5_cm Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 2 Number_of_positive_lymph_nodes 1 final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1c Pathologic_N_stage N1 Pathologic_M_stage M0 Pathologic_TNM_stage IIA ER_status _75_ PR_status _75_ HER2 1_ HER2_FISH Not_Performed Invasive_Grade I Grade_for_DCIS NO_INPUT Age_menopause 48 years_since_menopause 30 days_since_last_period NO_INPUT days_biop_to_surg 36 min_abx_to_specimen 99 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 75_ agecat_2 56_ simple_id 44 histology_cat InvCa t2specimen_cat 61-90min bmi_cat 18.5-24.9 her2pos 0 any_children 1 enrolltime 5 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593505 SAMN05441292 646099 human metagenome 046_MAL collection_date 2014-10-14 env_biome Buccal Cells env_feature Buccal Cells env_material Buccal Cells geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 78 BMI 23.6 Body_weight_kg 65.9 Weight_category 1 Smoker_status Former_smoker Or_if_exact_date_unknown_choose _6_weeks Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 8 Parity 7 Year_of_last_parity NO_INPUT Breastfed_ever Yes How_long_breastfed_cumulative One_year_or_more Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis IMC If_other_please_specify_2 NO_INPUT Date_of_surgery 10/21/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Other Preop_antibiotic_dose_mg 1000 abx_time 8_11_00 incision_time 8_37_00 closure_time 10_17_00 specimen_time 9_50_00 time_from_incision_to_specimen 73 Distance_of_specimen_from_nipple 6 dfn_cat __5_cm Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 2 Number_of_positive_lymph_nodes 1 final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1c Pathologic_N_stage N1 Pathologic_M_stage M0 Pathologic_TNM_stage IIA ER_status _75_ PR_status _75_ HER2 1_ HER2_FISH Not_Performed Invasive_Grade I Grade_for_DCIS NO_INPUT Age_menopause 48 years_since_menopause 30 days_since_last_period NO_INPUT days_biop_to_surg 36 min_abx_to_specimen 99 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 75_ agecat_2 56_ simple_id 44 histology_cat InvCa t2specimen_cat 61-90min bmi_cat 18.5-24.9 her2pos 0 any_children 1 enrolltime 5 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593506 SAMN05441293 646099 human metagenome 046_MAL collection_date 2014-10-21 env_biome Skin Swab env_feature Skin Swab env_material Skin Swab geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/2/2015 Custom_Index CTTTAGGTGCTA Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AFV88 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150702_M00710_0038_000000000-AFV88 Sample_Concentration 0.9 Sample_Volume 50 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 38 Sequencing_Run_Type MiSeq_PE_300_Run Pool_Name Hieken1_060815 batch 3 Age 78 BMI 23.6 Body_weight_kg 65.9 Weight_category 1 Smoker_status Former_smoker Or_if_exact_date_unknown_choose _6_weeks Diabetes_mellitus No ASA_class 2 Prior_ipsilateral_breast_surgery No Gravidity 8 Parity 7 Year_of_last_parity NO_INPUT Breastfed_ever Yes How_long_breastfed_cumulative One_year_or_more Menopausal_status Post-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer None Preoperative_diagnosis IMC If_other_please_specify_2 NO_INPUT Date_of_surgery 10/21/2014 Preoperative_Hibiclens_wash_doc No Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Other Preop_antibiotic_dose_mg 1000 abx_time 8_11_00 incision_time 8_37_00 closure_time 10_17_00 specimen_time 9_50_00 time_from_incision_to_specimen 73 Distance_of_specimen_from_nipple 6 dfn_cat __5_cm Breast_operation WLE Axillary_operation SLNB_only Total_number_of_lymph_nodes_remo 2 Number_of_positive_lymph_nodes 1 final_dx Malignant Final_pathology_histology_ IDC Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage T1c Pathologic_N_stage N1 Pathologic_M_stage M0 Pathologic_TNM_stage IIA ER_status _75_ PR_status _75_ HER2 1_ HER2_FISH Not_Performed Invasive_Grade I Grade_for_DCIS NO_INPUT Age_menopause 48 years_since_menopause 30 days_since_last_period NO_INPUT days_biop_to_surg 36 min_abx_to_specimen 99 erpos 1 prpos 1 Final_histology_more_detail IDC BBD_Category NO_INPUT bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 75_ agecat_2 56_ simple_id 44 histology_cat InvCa t2specimen_cat 61-90min bmi_cat 18.5-24.9 her2pos 0 any_children 1 enrolltime 5 histology_cat2 InvCa BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593507 SAMN05441294 646099 human metagenome 047_NAT collection_date 2014-10-23 env_biome Breast env_feature Breast env_material Breast geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 33 BMI 21.3 Body_weight_kg 57.3 Weight_category 1 Smoker_status Former_smoker Or_if_exact_date_unknown_choose _6_weeks Diabetes_mellitus No ASA_class 1 Prior_ipsilateral_breast_surgery No Gravidity 1 Parity 0 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Pre-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer 2nd_degree_or_greater_relative Preoperative_diagnosis Other If_other_please_specify_2 cellular_fibroepithelial Date_of_surgery 10/23/2014 Preoperative_Hibiclens_wash_doc Yes Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 10_38_00 incision_time 10_57_00 closure_time 11_54_00 specimen_time 11_39_00 time_from_incision_to_specimen 42 Distance_of_specimen_from_nipple 6 dfn_cat __5_cm Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ Other Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period NO_INPUT days_biop_to_surg 35 min_abx_to_specimen 61 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail Fibroadenoma BBD_Category NP bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 33-54 agecat_2 33-44 simple_id 45 histology_cat BBD_non_atypia t2specimen_cat 31-60min bmi_cat 18.5-24.9 her2pos NO_INPUT any_children 0 enrolltime 5 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593508 SAMN05441295 646099 human metagenome 047_NAT collection_date 2014-10-22 env_biome Buccal Cells env_feature Buccal Cells env_material Buccal Cells geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 33 BMI 21.3 Body_weight_kg 57.3 Weight_category 1 Smoker_status Former_smoker Or_if_exact_date_unknown_choose _6_weeks Diabetes_mellitus No ASA_class 1 Prior_ipsilateral_breast_surgery No Gravidity 1 Parity 0 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Pre-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer 2nd_degree_or_greater_relative Preoperative_diagnosis Other If_other_please_specify_2 cellular_fibroepithelial Date_of_surgery 10/23/2014 Preoperative_Hibiclens_wash_doc Yes Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 10_38_00 incision_time 10_57_00 closure_time 11_54_00 specimen_time 11_39_00 time_from_incision_to_specimen 42 Distance_of_specimen_from_nipple 6 dfn_cat __5_cm Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ Other Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period NO_INPUT days_biop_to_surg 35 min_abx_to_specimen 61 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail Fibroadenoma BBD_Category NP bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 33-54 agecat_2 33-44 simple_id 45 histology_cat BBD_non_atypia t2specimen_cat 31-60min bmi_cat 18.5-24.9 her2pos NO_INPUT any_children 0 enrolltime 5 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593509 SAMN05441296 646099 human metagenome 047_NAT collection_date 2014-10-23 env_biome Skin Swab env_feature Skin Swab env_material Skin Swab geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 1 Application_Type 16sAMP Cluster_Gen__Date 7/2/2015 Custom_Index GCAACAAGAAAC Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AFV88 Multiplexing_Indexin Y PCR_Gel_Band_size 685 Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150702_M00710_0038_000000000-AFV88 Sample_Concentration 0.9 Sample_Volume 50 Sample_Vol__Units uL Seq_Kit_Version MiSeq_v3 Sequencing_Platform MiSeq Sequencing_Run_Nbr 38 Sequencing_Run_Type MiSeq_PE_300_Run Pool_Name Hieken1_060815 batch 3 Age 33 BMI 21.3 Body_weight_kg 57.3 Weight_category 1 Smoker_status Former_smoker Or_if_exact_date_unknown_choose _6_weeks Diabetes_mellitus No ASA_class 1 Prior_ipsilateral_breast_surgery No Gravidity 1 Parity 0 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Pre-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer 2nd_degree_or_greater_relative Preoperative_diagnosis Other If_other_please_specify_2 cellular_fibroepithelial Date_of_surgery 10/23/2014 Preoperative_Hibiclens_wash_doc Yes Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 10_38_00 incision_time 10_57_00 closure_time 11_54_00 specimen_time 11_39_00 time_from_incision_to_specimen 42 Distance_of_specimen_from_nipple 6 dfn_cat __5_cm Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ Other Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period NO_INPUT days_biop_to_surg 35 min_abx_to_specimen 61 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail Fibroadenoma BBD_Category NP bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 33-54 agecat_2 33-44 simple_id 45 histology_cat BBD_non_atypia t2specimen_cat 31-60min bmi_cat 18.5-24.9 her2pos NO_INPUT any_children 0 enrolltime 5 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated SRS1593510 SAMN05441297 646099 human metagenome 047_NAT collection_date 2014-10-23 env_biome Skin Tissue env_feature Skin Tissue env_material Skin Tissue geo_loc_name not applicable host Homo sapiens lat_lon not applicable Data_Set 2 Application_Type NO_INPUT Cluster_Gen__Date 6/26/2015 Custom_Index NO_INPUT Data_Collection_Vers MCS_v2.5.0.4 Flow_Cell_Conc___pM_ 6 Flow_Cell_Serial_Num 000000000-AG075 Multiplexing_Indexin NO_INPUT PCR_Gel_Band_size NO_INPUT Pipeline_Ver MiSeq_Reporter_v2.5.1.3 Run_Folder 150626_M00710_0037_000000000-AG075 Sample_Concentration 6.036 Sample_Volume NO_INPUT Sample_Vol__Units NO_INPUT Seq_Kit_Version MiSeq_v3 Sequencing_Platform NO_INPUT Sequencing_Run_Nbr 37 Sequencing_Run_Type NO_INPUT Pool_Name Hieken10_060815 batch 3 Age 33 BMI 21.3 Body_weight_kg 57.3 Weight_category 1 Smoker_status Former_smoker Or_if_exact_date_unknown_choose _6_weeks Diabetes_mellitus No ASA_class 1 Prior_ipsilateral_breast_surgery No Gravidity 1 Parity 0 Year_of_last_parity NO_INPUT Breastfed_ever NO_INPUT How_long_breastfed_cumulative NO_INPUT Menopausal_status Pre-menopause Neoadjuvant_therapy None Genetic_testing Not_tested Family_history_of_breast_cancer 2nd_degree_or_greater_relative Preoperative_diagnosis Other If_other_please_specify_2 cellular_fibroepithelial Date_of_surgery 10/23/2014 Preoperative_Hibiclens_wash_doc Yes Preoperative_skin_prep Chloraprep Preoperative_antibiotic_administ Yes Type_of_preop_antibiotic Ancef Preop_antibiotic_dose_mg 1000 abx_time 10_38_00 incision_time 10_57_00 closure_time 11_54_00 specimen_time 11_39_00 time_from_incision_to_specimen 42 Distance_of_specimen_from_nipple 6 dfn_cat __5_cm Breast_operation Excisional_biopsy Axillary_operation None Total_number_of_lymph_nodes_remo NO_INPUT Number_of_positive_lymph_nodes NO_INPUT final_dx Benign Final_pathology_histology_ Other Secondary_Pathology_associated_ None If_other_secondary_pathology_pl NO_INPUT Pathologic_T_stage NO_INPUT Pathologic_N_stage NO_INPUT Pathologic_M_stage NO_INPUT Pathologic_TNM_stage NO_INPUT ER_status NO_INPUT PR_status NO_INPUT HER2 NO_INPUT HER2_FISH NO_INPUT Invasive_Grade NO_INPUT Grade_for_DCIS NO_INPUT Age_menopause NO_INPUT years_since_menopause NO_INPUT days_since_last_period NO_INPUT days_biop_to_surg 35 min_abx_to_specimen 61 erpos NO_INPUT prpos NO_INPUT Final_histology_more_detail Fibroadenoma BBD_Category NP bxtosx_gt28days 1 dist_nipple_gt2 1 agecat_1 33-54 agecat_2 33-44 simple_id 45 histology_cat BBD_non_atypia t2specimen_cat 31-60min bmi_cat 18.5-24.9 her2pos NO_INPUT any_children 0 enrolltime 5 histology_cat2 Benign BioSampleModel MIMARKS.survey BioSampleModel MIGS/MIMS/MIMARKS.human-associated