<?xml version="1.0" encoding="UTF-8"?>
<EXPERIMENT_SET xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance">
  <EXPERIMENT accession="SRX473812" center_name="BI" alias="2613883.WR39955.Pond-321712.C3UMYACXX140212.P">
    <IDENTIFIERS>
      <PRIMARY_ID>SRX473812</PRIMARY_ID>
      <SUBMITTER_ID namespace="BI">2613883.WR39955.Pond-321712.C3UMYACXX140212.P</SUBMITTER_ID>
      <UUID>32cce31e-2186-4e99-8a84-3e1ed544b54e</UUID>
    </IDENTIFIERS>
    <TITLE>Illumina whole genome shotgun sequencing of genomic DNA paired-end library 'Pond-321712' containing sample '8451' from individual '00035'</TITLE>
    <STUDY_REF accession="SRP038639">
      <IDENTIFIERS>
        <PRIMARY_ID>SRP038639</PRIMARY_ID>
        <EXTERNAL_ID namespace="bioproject">PRJNA233335</EXTERNAL_ID>
        <EXTERNAL_ID namespace="Broad Institute" label="Mycobacterium tuberculosis 8451">TB ARC CDRC Alland Mycobacterium_tuberculosis_8451_ltp_Z535_WGS_Monoisolate</EXTERNAL_ID>
      </IDENTIFIERS>
    </STUDY_REF>
    <DESIGN>
      <DESIGN_DESCRIPTION>Illumina sequencing of Mycobacterium tuberculosis 8451 via random selection</DESIGN_DESCRIPTION>
      <SAMPLE_DESCRIPTOR accession="SRS559971">
        <IDENTIFIERS>
          <PRIMARY_ID>SRS559971</PRIMARY_ID>
          <EXTERNAL_ID namespace="biosample">SAMN02567675</EXTERNAL_ID>
          <EXTERNAL_ID namespace="Broad Institute">8451</EXTERNAL_ID>
        </IDENTIFIERS>
      </SAMPLE_DESCRIPTOR>
      <LIBRARY_DESCRIPTOR>
        <LIBRARY_NAME>Pond-321712</LIBRARY_NAME>
        <LIBRARY_STRATEGY>WGS</LIBRARY_STRATEGY>
        <LIBRARY_SOURCE>GENOMIC</LIBRARY_SOURCE>
        <LIBRARY_SELECTION>RANDOM</LIBRARY_SELECTION>
        <LIBRARY_LAYOUT>
          <PAIRED NOMINAL_SDEV="87.695635" NOMINAL_LENGTH="200"/>
        </LIBRARY_LAYOUT>
      </LIBRARY_DESCRIPTOR>
      <SPOT_DESCRIPTOR>
        <SPOT_DECODE_SPEC>
          <SPOT_LENGTH>202</SPOT_LENGTH>
          <READ_SPEC>
            <READ_INDEX>0</READ_INDEX>
            <READ_LABEL>forward</READ_LABEL>
            <READ_CLASS>Application Read</READ_CLASS>
            <READ_TYPE>Forward</READ_TYPE>
            <BASE_COORD>1</BASE_COORD>
          </READ_SPEC>
          <READ_SPEC>
            <READ_INDEX>1</READ_INDEX>
            <READ_LABEL>reverse</READ_LABEL>
            <READ_CLASS>Application Read</READ_CLASS>
            <READ_TYPE>Reverse</READ_TYPE>
            <BASE_COORD>102</BASE_COORD>
          </READ_SPEC>
        </SPOT_DECODE_SPEC>
      </SPOT_DESCRIPTOR>
    </DESIGN>
    <PLATFORM>
      <ILLUMINA>
        <INSTRUMENT_MODEL>Illumina HiSeq 2000</INSTRUMENT_MODEL>
      </ILLUMINA>
    </PLATFORM>
    <PROCESSING>
      <PIPELINE>
        <PIPE_SECTION section_name="base caller">
          <STEP_INDEX>2014-02-18 13:26:54.0</STEP_INDEX>
          <PREV_STEP_INDEX>N/A</PREV_STEP_INDEX>
          <PROGRAM>GAPipeline</PROGRAM>
          <VERSION>RTA1.17.21.3</VERSION>
          <NOTES>Sequencer Application 2.1.35.0</NOTES>
        </PIPE_SECTION>
      </PIPELINE>
    </PROCESSING>
    <EXPERIMENT_ATTRIBUTES>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>analysis_type</TAG>
        <VALUE>AssemblyWithReference</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>data_type</TAG>
        <VALUE>WGS</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>gssr_id</TAG>
        <VALUE>483181.0</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>library_type</TAG>
        <VALUE>WholeGenomeShotgun</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>lsid</TAG>
        <VALUE>broadinstitute.org:bsp.prod.sample:5FU4A</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>material_type</TAG>
        <VALUE>DNA:DNA Somatic</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>product_order</TAG>
        <VALUE>PDO-2774</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>product_part_number</TAG>
        <VALUE>P-WG-0033</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>project</TAG>
        <VALUE>G57448</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>research_project</TAG>
        <VALUE>RP-114</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>root_sample_id</TAG>
        <VALUE>SM-3RCHY</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>sample_id</TAG>
        <VALUE>SM-5FU4A</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>work_request</TAG>
        <VALUE>39955</VALUE>
      </EXPERIMENT_ATTRIBUTE>
    </EXPERIMENT_ATTRIBUTES>
  </EXPERIMENT>
  <EXPERIMENT accession="SRX474011" center_name="BI" alias="2613883.WR39955.Pond-321712.C3TY6ACXX140212.P">
    <IDENTIFIERS>
      <PRIMARY_ID>SRX474011</PRIMARY_ID>
      <SUBMITTER_ID namespace="BI">2613883.WR39955.Pond-321712.C3TY6ACXX140212.P</SUBMITTER_ID>
      <UUID>6c2e6c8c-9134-41d9-89ea-8cc0143154ee</UUID>
    </IDENTIFIERS>
    <TITLE>Illumina whole genome shotgun sequencing of genomic DNA paired-end library 'Pond-321712' containing sample '8451' from individual '00035'</TITLE>
    <STUDY_REF accession="SRP038639">
      <IDENTIFIERS>
        <PRIMARY_ID>SRP038639</PRIMARY_ID>
        <EXTERNAL_ID namespace="bioproject">PRJNA233335</EXTERNAL_ID>
        <EXTERNAL_ID namespace="Broad Institute" label="Mycobacterium tuberculosis 8451">TB ARC CDRC Alland Mycobacterium_tuberculosis_8451_ltp_Z535_WGS_Monoisolate</EXTERNAL_ID>
      </IDENTIFIERS>
    </STUDY_REF>
    <DESIGN>
      <DESIGN_DESCRIPTION>Illumina sequencing of Mycobacterium tuberculosis 8451 via random selection</DESIGN_DESCRIPTION>
      <SAMPLE_DESCRIPTOR accession="SRS559971">
        <IDENTIFIERS>
          <PRIMARY_ID>SRS559971</PRIMARY_ID>
          <EXTERNAL_ID namespace="biosample">SAMN02567675</EXTERNAL_ID>
          <EXTERNAL_ID namespace="Broad Institute">8451</EXTERNAL_ID>
        </IDENTIFIERS>
      </SAMPLE_DESCRIPTOR>
      <LIBRARY_DESCRIPTOR>
        <LIBRARY_NAME>Pond-321712</LIBRARY_NAME>
        <LIBRARY_STRATEGY>WGS</LIBRARY_STRATEGY>
        <LIBRARY_SOURCE>GENOMIC</LIBRARY_SOURCE>
        <LIBRARY_SELECTION>RANDOM</LIBRARY_SELECTION>
        <LIBRARY_LAYOUT>
          <PAIRED NOMINAL_SDEV="87.695635" NOMINAL_LENGTH="200"/>
        </LIBRARY_LAYOUT>
      </LIBRARY_DESCRIPTOR>
      <SPOT_DESCRIPTOR>
        <SPOT_DECODE_SPEC>
          <SPOT_LENGTH>202</SPOT_LENGTH>
          <READ_SPEC>
            <READ_INDEX>0</READ_INDEX>
            <READ_LABEL>forward</READ_LABEL>
            <READ_CLASS>Application Read</READ_CLASS>
            <READ_TYPE>Forward</READ_TYPE>
            <BASE_COORD>1</BASE_COORD>
          </READ_SPEC>
          <READ_SPEC>
            <READ_INDEX>1</READ_INDEX>
            <READ_LABEL>reverse</READ_LABEL>
            <READ_CLASS>Application Read</READ_CLASS>
            <READ_TYPE>Reverse</READ_TYPE>
            <BASE_COORD>102</BASE_COORD>
          </READ_SPEC>
        </SPOT_DECODE_SPEC>
      </SPOT_DESCRIPTOR>
    </DESIGN>
    <PLATFORM>
      <ILLUMINA>
        <INSTRUMENT_MODEL>Illumina HiSeq 2000</INSTRUMENT_MODEL>
      </ILLUMINA>
    </PLATFORM>
    <PROCESSING>
      <PIPELINE>
        <PIPE_SECTION section_name="base caller">
          <STEP_INDEX>2014-02-18 13:40:42.0</STEP_INDEX>
          <PREV_STEP_INDEX>N/A</PREV_STEP_INDEX>
          <PROGRAM>GAPipeline</PROGRAM>
          <VERSION>RTA1.17.21.3</VERSION>
          <NOTES>Sequencer Application 2.1.35.0</NOTES>
        </PIPE_SECTION>
      </PIPELINE>
    </PROCESSING>
    <EXPERIMENT_ATTRIBUTES>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>analysis_type</TAG>
        <VALUE>AssemblyWithReference</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>data_type</TAG>
        <VALUE>WGS</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>gssr_id</TAG>
        <VALUE>483181.0</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>library_type</TAG>
        <VALUE>WholeGenomeShotgun</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>lsid</TAG>
        <VALUE>broadinstitute.org:bsp.prod.sample:5FU4A</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>material_type</TAG>
        <VALUE>DNA:DNA Somatic</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>product_order</TAG>
        <VALUE>PDO-2774</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>product_part_number</TAG>
        <VALUE>P-WG-0033</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>project</TAG>
        <VALUE>G57448</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>research_project</TAG>
        <VALUE>RP-114</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>root_sample_id</TAG>
        <VALUE>SM-3RCHY</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>sample_id</TAG>
        <VALUE>SM-5FU4A</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>work_request</TAG>
        <VALUE>39955</VALUE>
      </EXPERIMENT_ATTRIBUTE>
    </EXPERIMENT_ATTRIBUTES>
  </EXPERIMENT>
</EXPERIMENT_SET>
