<?xml version="1.0" encoding="UTF-8"?>
<EXPERIMENT_SET xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance">
  <EXPERIMENT alias="SB_UML_WGS" accession="SRX1044733">
    <IDENTIFIERS>
      <PRIMARY_ID>SRX1044733</PRIMARY_ID>
      <SUBMITTER_ID namespace="Houston Methodist Research Institute">SB_UML_WGS</SUBMITTER_ID>
    </IDENTIFIERS>
    <TITLE>Whole genome sequencing of murine myeloid leukemia genomes.</TITLE>
    <STUDY_REF accession="SRP058914">
      <IDENTIFIERS>
        <PRIMARY_ID>SRP058914</PRIMARY_ID>
        <EXTERNAL_ID namespace="BioProject">PRJNA285079</EXTERNAL_ID>
      </IDENTIFIERS>
    </STUDY_REF>
    <DESIGN>
      <DESIGN_DESCRIPTION>Experiment design: Experimental procedures. Genomic DNA (gDNA) was randomly fragmented, ligated with sequencing adapters, purified and run on an Agilent 2100 Bioanalyzer for library quantitation. The captured library was then loaded on Hiseq2500 flow cells and high-throughput sequencing for each library was carried out to 100X coverage. Raw image files were processed by Illumina base calling Software 1.8 for base calling with default parameters.</DESIGN_DESCRIPTION>
      <SAMPLE_DESCRIPTOR accession="SRS950097">
        <IDENTIFIERS>
          <PRIMARY_ID>SRS950097</PRIMARY_ID>
          <EXTERNAL_ID namespace="BioSample">SAMN03737599</EXTERNAL_ID>
        </IDENTIFIERS>
      </SAMPLE_DESCRIPTOR>
      <LIBRARY_DESCRIPTOR>
        <LIBRARY_NAME>D0005_SP_WGS_T</LIBRARY_NAME>
        <LIBRARY_STRATEGY>WGS</LIBRARY_STRATEGY>
        <LIBRARY_SOURCE>GENOMIC</LIBRARY_SOURCE>
        <LIBRARY_SELECTION>size fractionation</LIBRARY_SELECTION>
        <LIBRARY_LAYOUT>
          <PAIRED NOMINAL_LENGTH="100" NOMINAL_SDEV="1"/>
        </LIBRARY_LAYOUT>
      </LIBRARY_DESCRIPTOR>
      <SPOT_DESCRIPTOR>
        <SPOT_DECODE_SPEC>
          <SPOT_LENGTH>200</SPOT_LENGTH>
          <READ_SPEC>
            <READ_INDEX>0</READ_INDEX>
            <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_CLASS>Application Read</READ_CLASS>
            <READ_TYPE>Reverse</READ_TYPE>
            <BASE_COORD>101</BASE_COORD>
          </READ_SPEC>
        </SPOT_DECODE_SPEC>
      </SPOT_DESCRIPTOR>
    </DESIGN>
    <PLATFORM>
      <ILLUMINA>
        <INSTRUMENT_MODEL>Illumina HiSeq 2500</INSTRUMENT_MODEL>
      </ILLUMINA>
    </PLATFORM>
  </EXPERIMENT>
  <EXPERIMENT alias="SB_NML_WGS" accession="SRX1044736">
    <IDENTIFIERS>
      <PRIMARY_ID>SRX1044736</PRIMARY_ID>
      <SUBMITTER_ID namespace="Houston Methodist Research Institute">SB_NML_WGS</SUBMITTER_ID>
    </IDENTIFIERS>
    <TITLE>Whole genome sequencing of murine myeloid leukemia genomes.</TITLE>
    <STUDY_REF accession="SRP058914">
      <IDENTIFIERS>
        <PRIMARY_ID>SRP058914</PRIMARY_ID>
      </IDENTIFIERS>
    </STUDY_REF>
    <DESIGN>
      <DESIGN_DESCRIPTION>Experiment design: Experimental procedures. Genomic DNA (gDNA) was randomly fragmented, ligated with sequencing adapters, purified and run on an Agilent 2100 Bioanalyzer for library quantitation. The captured library was then loaded on Hiseq2500 flow cells and high-throughput sequencing for each library was carried out to 100X coverage. Raw image files were processed by Illumina base calling Software 1.8 for base calling with default parameters.</DESIGN_DESCRIPTION>
      <SAMPLE_DESCRIPTOR accession="SRS950099">
        <IDENTIFIERS>
          <PRIMARY_ID>SRS950099</PRIMARY_ID>
          <EXTERNAL_ID namespace="BioSample">SAMN03737642</EXTERNAL_ID>
        </IDENTIFIERS>
      </SAMPLE_DESCRIPTOR>
      <LIBRARY_DESCRIPTOR>
        <LIBRARY_NAME>D0006_TL_WGS_N</LIBRARY_NAME>
        <LIBRARY_STRATEGY>WGA</LIBRARY_STRATEGY>
        <LIBRARY_SOURCE>GENOMIC</LIBRARY_SOURCE>
        <LIBRARY_SELECTION>size fractionation</LIBRARY_SELECTION>
        <LIBRARY_LAYOUT>
          <PAIRED NOMINAL_LENGTH="100" NOMINAL_SDEV="1"/>
        </LIBRARY_LAYOUT>
      </LIBRARY_DESCRIPTOR>
      <SPOT_DESCRIPTOR>
        <SPOT_DECODE_SPEC>
          <SPOT_LENGTH>200</SPOT_LENGTH>
          <READ_SPEC>
            <READ_INDEX>0</READ_INDEX>
            <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_CLASS>Application Read</READ_CLASS>
            <READ_TYPE>Reverse</READ_TYPE>
            <BASE_COORD>101</BASE_COORD>
          </READ_SPEC>
        </SPOT_DECODE_SPEC>
      </SPOT_DESCRIPTOR>
    </DESIGN>
    <PLATFORM>
      <ILLUMINA>
        <INSTRUMENT_MODEL>Illumina HiSeq 2500</INSTRUMENT_MODEL>
      </ILLUMINA>
    </PLATFORM>
  </EXPERIMENT>
</EXPERIMENT_SET>
