<?xml version="1.0" encoding="UTF-8"?>
<EXPERIMENT_SET xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance">
  <EXPERIMENT accession="SRX247771" center_name="BI" alias="1727227.WR35112.Pond-221815.D1NYDACXX130219.P">
    <IDENTIFIERS>
      <PRIMARY_ID>SRX247771</PRIMARY_ID>
      <SUBMITTER_ID namespace="BI">1727227.WR35112.Pond-221815.D1NYDACXX130219.P</SUBMITTER_ID>
      <UUID>3680c8e4-1b42-4e93-85b8-08bcdbd2f26a</UUID>
    </IDENTIFIERS>
    <TITLE>Illumina whole genome shotgun sequencing of genomic DNA paired-end library 'Pond-221815' containing sample 'Escherichia coli HVH 132 (4-6876862)'</TITLE>
    <STUDY_REF accession="SRP019098">
      <IDENTIFIERS>
        <PRIMARY_ID>SRP019098</PRIMARY_ID>
        <EXTERNAL_ID namespace="bioproject">PRJNA186153</EXTERNAL_ID>
        <EXTERNAL_ID namespace="Broad Institute" label="Escherichia coli HVH 132 (4-6876862)">E coli UTI Bacteremia Escherichia_HVH_132_4_6876862_ltp_G790_WGS_Monoisolate</EXTERNAL_ID>
      </IDENTIFIERS>
    </STUDY_REF>
    <DESIGN>
      <DESIGN_DESCRIPTION>Illumina sequencing of Escherichia coli HVH 132 (4-6876862) via random selection</DESIGN_DESCRIPTION>
      <SAMPLE_DESCRIPTOR accession="SRS399644">
        <IDENTIFIERS>
          <PRIMARY_ID>SRS399644</PRIMARY_ID>
          <EXTERNAL_ID namespace="biosample">SAMN01885777</EXTERNAL_ID>
          <EXTERNAL_ID namespace="Broad Institute">Escherichia coli HVH 132 (4-6876862)</EXTERNAL_ID>
        </IDENTIFIERS>
      </SAMPLE_DESCRIPTOR>
      <LIBRARY_DESCRIPTOR>
        <LIBRARY_NAME>Pond-221815</LIBRARY_NAME>
        <LIBRARY_STRATEGY>WGS</LIBRARY_STRATEGY>
        <LIBRARY_SOURCE>GENOMIC</LIBRARY_SOURCE>
        <LIBRARY_SELECTION>RANDOM</LIBRARY_SELECTION>
        <LIBRARY_LAYOUT>
          <PAIRED NOMINAL_LENGTH="180" NOMINAL_SDEV="34.627445"/>
        </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>2013-03-02 13:23:59.0</STEP_INDEX>
          <PREV_STEP_INDEX>N/A</PREV_STEP_INDEX>
          <PROGRAM>GAPipeline</PROGRAM>
          <VERSION>RTA1.15.19.5</VERSION>
          <NOTES>Sequencer Application 1.6.8.6</NOTES>
        </PIPE_SECTION>
      </PIPELINE>
    </PROCESSING>
    <EXPERIMENT_ATTRIBUTES>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>analysis_type</TAG>
        <VALUE>AssemblyWithReference</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>gssr_id</TAG>
        <VALUE>289722.0</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:3VHM7</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>material_type</TAG>
        <VALUE>DNA:DNA Somatic</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>product_order</TAG>
        <VALUE>PDO-291</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>product_part_number</TAG>
        <VALUE>P-MCV-0001</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>project</TAG>
        <VALUE>G30139</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>research_project</TAG>
        <VALUE>RP-192</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>root_sample_id</TAG>
        <VALUE>SM-2TCZU</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>sample_id</TAG>
        <VALUE>SM-3VHM7</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>work_request</TAG>
        <VALUE>35112</VALUE>
      </EXPERIMENT_ATTRIBUTE>
    </EXPERIMENT_ATTRIBUTES>
  </EXPERIMENT>
  <EXPERIMENT accession="SRX251080" center_name="BI" alias="1727227.WR35112.Pond-221815.D1T5VACXX130225.P">
    <IDENTIFIERS>
      <PRIMARY_ID>SRX251080</PRIMARY_ID>
      <SUBMITTER_ID namespace="BI">1727227.WR35112.Pond-221815.D1T5VACXX130225.P</SUBMITTER_ID>
      <UUID>13a9c0bd-501e-4190-899c-d79414e51df4</UUID>
    </IDENTIFIERS>
    <TITLE>Illumina whole genome shotgun sequencing of genomic DNA paired-end library 'Pond-221815' containing sample 'Escherichia coli HVH 132 (4-6876862)'</TITLE>
    <STUDY_REF accession="SRP019098">
      <IDENTIFIERS>
        <PRIMARY_ID>SRP019098</PRIMARY_ID>
        <EXTERNAL_ID namespace="bioproject">PRJNA186153</EXTERNAL_ID>
        <EXTERNAL_ID namespace="Broad Institute" label="Escherichia coli HVH 132 (4-6876862)">E coli UTI Bacteremia Escherichia_HVH_132_4_6876862_ltp_G790_WGS_Monoisolate</EXTERNAL_ID>
      </IDENTIFIERS>
    </STUDY_REF>
    <DESIGN>
      <DESIGN_DESCRIPTION>Illumina sequencing of Escherichia coli HVH 132 (4-6876862) via random selection</DESIGN_DESCRIPTION>
      <SAMPLE_DESCRIPTOR accession="SRS399644">
        <IDENTIFIERS>
          <PRIMARY_ID>SRS399644</PRIMARY_ID>
          <EXTERNAL_ID namespace="biosample">SAMN01885777</EXTERNAL_ID>
          <EXTERNAL_ID namespace="Broad Institute">Escherichia coli HVH 132 (4-6876862)</EXTERNAL_ID>
        </IDENTIFIERS>
      </SAMPLE_DESCRIPTOR>
      <LIBRARY_DESCRIPTOR>
        <LIBRARY_NAME>Pond-221815</LIBRARY_NAME>
        <LIBRARY_STRATEGY>WGS</LIBRARY_STRATEGY>
        <LIBRARY_SOURCE>GENOMIC</LIBRARY_SOURCE>
        <LIBRARY_SELECTION>RANDOM</LIBRARY_SELECTION>
        <LIBRARY_LAYOUT>
          <PAIRED NOMINAL_LENGTH="180" NOMINAL_SDEV="34.627445"/>
        </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>2013-03-08 22:34:25.0</STEP_INDEX>
          <PREV_STEP_INDEX>N/A</PREV_STEP_INDEX>
          <PROGRAM>GAPipeline</PROGRAM>
          <VERSION>RTA1.15.19.5</VERSION>
          <NOTES>Sequencer Application 1.6.8.6</NOTES>
        </PIPE_SECTION>
      </PIPELINE>
    </PROCESSING>
    <EXPERIMENT_ATTRIBUTES>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>analysis_type</TAG>
        <VALUE>AssemblyWithReference</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>gssr_id</TAG>
        <VALUE>289722.0</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:3VHM7</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>material_type</TAG>
        <VALUE>DNA:DNA Somatic</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>product_order</TAG>
        <VALUE>PDO-291</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>product_part_number</TAG>
        <VALUE>P-MCV-0001</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>project</TAG>
        <VALUE>G30139</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>research_project</TAG>
        <VALUE>RP-192</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>root_sample_id</TAG>
        <VALUE>SM-2TCZU</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>sample_id</TAG>
        <VALUE>SM-3VHM7</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>work_request</TAG>
        <VALUE>35112</VALUE>
      </EXPERIMENT_ATTRIBUTE>
    </EXPERIMENT_ATTRIBUTES>
  </EXPERIMENT>
  <EXPERIMENT accession="SRX340310" center_name="BI" alias="1727227.WR35511.Solexa-146524.C2291ACXX130426.P">
    <IDENTIFIERS>
      <PRIMARY_ID>SRX340310</PRIMARY_ID>
      <SUBMITTER_ID namespace="BI">1727227.WR35511.Solexa-146524.C2291ACXX130426.P</SUBMITTER_ID>
      <UUID>192dbaa6-f831-41ae-afb5-3c764ced8948</UUID>
    </IDENTIFIERS>
    <TITLE>Illumina whole genome shotgun sequencing of genomic DNA paired-end library 'Solexa-146524' containing sample 'Escherichia coli HVH 132 (4-6876862)'</TITLE>
    <STUDY_REF accession="SRP019098">
      <IDENTIFIERS>
        <PRIMARY_ID>SRP019098</PRIMARY_ID>
        <EXTERNAL_ID namespace="bioproject">PRJNA186153</EXTERNAL_ID>
        <EXTERNAL_ID namespace="Broad Institute" label="Escherichia coli HVH 132 (4-6876862)">E coli UTI Bacteremia Escherichia_HVH_132_4_6876862_ltp_G790_WGS_Monoisolate</EXTERNAL_ID>
      </IDENTIFIERS>
    </STUDY_REF>
    <DESIGN>
      <DESIGN_DESCRIPTION>jumping library</DESIGN_DESCRIPTION>
      <SAMPLE_DESCRIPTOR accession="SRS399644">
        <IDENTIFIERS>
          <PRIMARY_ID>SRS399644</PRIMARY_ID>
          <EXTERNAL_ID namespace="biosample">SAMN01885777</EXTERNAL_ID>
          <EXTERNAL_ID namespace="Broad Institute">Escherichia coli HVH 132 (4-6876862)</EXTERNAL_ID>
        </IDENTIFIERS>
      </SAMPLE_DESCRIPTOR>
      <LIBRARY_DESCRIPTOR>
        <LIBRARY_NAME>Solexa-146524</LIBRARY_NAME>
        <LIBRARY_STRATEGY>WGS</LIBRARY_STRATEGY>
        <LIBRARY_SOURCE>GENOMIC</LIBRARY_SOURCE>
        <LIBRARY_SELECTION>RANDOM</LIBRARY_SELECTION>
        <LIBRARY_LAYOUT>
          <PAIRED NOMINAL_LENGTH="5000" NOMINAL_SDEV="187.40683"/>
        </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>2013-05-09 06:21:59.0</STEP_INDEX>
          <PREV_STEP_INDEX>N/A</PREV_STEP_INDEX>
          <PROGRAM>GAPipeline</PROGRAM>
          <VERSION>RTA1.15.19.5</VERSION>
          <NOTES>Sequencer Application 1.6.8.6</NOTES>
        </PIPE_SECTION>
      </PIPELINE>
    </PROCESSING>
    <EXPERIMENT_ATTRIBUTES>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>analysis_type</TAG>
        <VALUE>AssemblyWithReference</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>gssr_id</TAG>
        <VALUE>294949.0</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>library_type</TAG>
        <VALUE>IlluminaStufferlessJump</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>lsid</TAG>
        <VALUE>broadinstitute.org:bsp.prod.sample:3YT8Z</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>material_type</TAG>
        <VALUE>DNA:DNA Somatic</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>product_order</TAG>
        <VALUE>PDO-291</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>product_part_number</TAG>
        <VALUE>P-MCV-0001</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>project</TAG>
        <VALUE>G30139</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>research_project</TAG>
        <VALUE>RP-192</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>root_sample_id</TAG>
        <VALUE>SM-2TCZU</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>sample_id</TAG>
        <VALUE>SM-3YT8Z</VALUE>
      </EXPERIMENT_ATTRIBUTE>
      <EXPERIMENT_ATTRIBUTE>
        <TAG>work_request</TAG>
        <VALUE>35511</VALUE>
      </EXPERIMENT_ATTRIBUTE>
    </EXPERIMENT_ATTRIBUTES>
  </EXPERIMENT>
</EXPERIMENT_SET>
