<?xml version="1.0" encoding="UTF-8"?>
<EXPERIMENT_SET xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance">
  <EXPERIMENT alias="Mixed Microbial Reference Sample" accession="SRX1287950">
    <IDENTIFIERS>
      <PRIMARY_ID>SRX1287950</PRIMARY_ID>
      <SUBMITTER_ID namespace="National Institute of Standards and Technology">Mixed Microbial Reference Sample</SUBMITTER_ID>
    </IDENTIFIERS>
    <TITLE>Mixed Microbial Reference Sample 2</TITLE>
    <STUDY_REF accession="SRP064204">
      <IDENTIFIERS>
        <PRIMARY_ID>SRP064204</PRIMARY_ID>
      </IDENTIFIERS>
    </STUDY_REF>
    <DESIGN>
      <DESIGN_DESCRIPTION>1. Quantify Samples using Qubit.  2. Prepare 0.2 ng/uL dilutions of each  3. Follow Nextera XT protocol     a. Tagmentation reaction following recommended procedure     b. PCR indexing (N701 and N502, N503)     c. PCR cleanup         i. Two washes of Buffer PE         ii. Two elutions of Buffer EB (20 uL each)     d. Quantify using Qubit  4. Library Normalization     a. Follow recommendations     b. Qubit  5. Library pooling     a. Use 12 uL of each normalized sample (approximately 13.4 pmol/L)     b. Assume 500 bases as average size (did not measure)</DESIGN_DESCRIPTION>
      <SAMPLE_DESCRIPTOR accession="SRS1094331">
        <IDENTIFIERS>
          <PRIMARY_ID>SRS1094331</PRIMARY_ID>
          <EXTERNAL_ID namespace="BioSample">SAMN04113077</EXTERNAL_ID>
        </IDENTIFIERS>
      </SAMPLE_DESCRIPTOR>
      <LIBRARY_DESCRIPTOR>
        <LIBRARY_NAME>MixedMicrobes</LIBRARY_NAME>
        <LIBRARY_STRATEGY>WGS</LIBRARY_STRATEGY>
        <LIBRARY_SOURCE>GENOMIC</LIBRARY_SOURCE>
        <LIBRARY_SELECTION>unspecified</LIBRARY_SELECTION>
        <LIBRARY_LAYOUT>
          <PAIRED NOMINAL_LENGTH="500" NOMINAL_SDEV="0.0E0"/>
        </LIBRARY_LAYOUT>
      </LIBRARY_DESCRIPTOR>
      <SPOT_DESCRIPTOR>
        <SPOT_DECODE_SPEC>
          <SPOT_LENGTH>600</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>301</BASE_COORD>
          </READ_SPEC>
        </SPOT_DECODE_SPEC>
      </SPOT_DESCRIPTOR>
    </DESIGN>
    <PLATFORM>
      <ILLUMINA>
        <INSTRUMENT_MODEL>Illumina MiSeq</INSTRUMENT_MODEL>
      </ILLUMINA>
    </PLATFORM>
  </EXPERIMENT>
  <EXPERIMENT alias="Mixed Microbial Reference Sample 1" accession="SRX1291986">
    <IDENTIFIERS>
      <PRIMARY_ID>SRX1291986</PRIMARY_ID>
      <SUBMITTER_ID namespace="National Institute of Standards and Technology">Mixed Microbial Reference Sample 1</SUBMITTER_ID>
    </IDENTIFIERS>
    <TITLE>Mixed Microbial Reference Sample</TITLE>
    <STUDY_REF accession="SRP064204">
      <IDENTIFIERS>
        <PRIMARY_ID>SRP064204</PRIMARY_ID>
      </IDENTIFIERS>
    </STUDY_REF>
    <DESIGN>
      <DESIGN_DESCRIPTION>1. Quantify Samples using Qubit. 2. Prepare 0.2 ng/uL dilutions of each 3. Follow Nextera XT protocol a. Tagmentation reaction following recommended procedure b. PCR indexing (N701 and N502, N503) c. PCR cleanup i. Two washes of Buffer PE ii. Two elutions of Buffer EB (20 uL each) d. Quantify using Qubit 4. Library Normalization a. Follow recommendations b. Qubit 5. Library pooling a. Use 12 uL of each normalized sample (approximately 13.4 pmol/L) b. Assume 500 bases as average size (did not measure) 6. Sequence using MiSeq</DESIGN_DESCRIPTION>
      <SAMPLE_DESCRIPTOR accession="SRS1094330">
        <IDENTIFIERS>
          <PRIMARY_ID>SRS1094330</PRIMARY_ID>
          <EXTERNAL_ID namespace="BioSample">SAMN04113076</EXTERNAL_ID>
        </IDENTIFIERS>
      </SAMPLE_DESCRIPTOR>
      <LIBRARY_DESCRIPTOR>
        <LIBRARY_NAME>MixedMicrobial1</LIBRARY_NAME>
        <LIBRARY_STRATEGY>WGS</LIBRARY_STRATEGY>
        <LIBRARY_SOURCE>GENOMIC</LIBRARY_SOURCE>
        <LIBRARY_SELECTION>unspecified</LIBRARY_SELECTION>
        <LIBRARY_LAYOUT>
          <PAIRED NOMINAL_LENGTH="500" NOMINAL_SDEV="0.0E0"/>
        </LIBRARY_LAYOUT>
      </LIBRARY_DESCRIPTOR>
      <SPOT_DESCRIPTOR>
        <SPOT_DECODE_SPEC>
          <SPOT_LENGTH>600</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>301</BASE_COORD>
          </READ_SPEC>
        </SPOT_DECODE_SPEC>
      </SPOT_DESCRIPTOR>
    </DESIGN>
    <PLATFORM>
      <ILLUMINA>
        <INSTRUMENT_MODEL>Illumina MiSeq</INSTRUMENT_MODEL>
      </ILLUMINA>
    </PLATFORM>
  </EXPERIMENT>
</EXPERIMENT_SET>
