Inspect: A Proteomics Search Toolkit

Copyright 2007, The Regents of the University of California

Table of Contents

  • Overview
  • Copyright information
  • Installation
  • Database
  • Searching
  • Analysis
  • Basic Tutorial
  • Advanced Tutorial
  • Unrestricted Search Tutorial
    MS2DB is a relatively straightforward file format. For now, the documentation is limited to a example.

    TODO: Document all available tags and attributes.

    Abbreviated example

    <Database>
<Gene ExonCount="14" Chromosome="chr1" ForwardFlag="1" Name="At1g02100">
  <Exon Index="0" Start="389875" End="389943">
    <ExonSequence Length="22">MAESRSNRAAVQATNDDASASK</ExonSequence>
  </Exon>
  <Exon Index="1" Start="390036" End="390250">
    <ExonSequence Length="71">SCVKKGYMKDDYVHLFVKRPVRRSPIINRGYFSRWAAFRKLMSQFLLSGTSSKKQILSLGAGFDTTYFQLL</ExonSequence>
    <LinkFrom Index="0" AA="L" />
  </Exon>

[.......]

  <Exon Index="12" Start="392261" End="392300">
    <ExonSequence Length="13">EHYCVTYAVNDAM</ExonSequence>
    <LinkFrom Index="9" />
  </Exon>
  <Exon Index="13" Start="392373" End="392448">
    <ExonSequence Length="25">GIFGDFGFTREGGGERMSSSASSPX</ExonSequence>
    <LinkFrom Index="12" />
  </Exon>
  <CrossReference Database"Salk" ID="At1g02100.1">
    <CRExons Index="0, 1, 2, 3, 4, 5, 6, 7, 8, 9, 12, 13 />
  </CrossReference>
  <CrossReference Database"Salk" ID="At1g02100.2">
    <CRExons Index="0, 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11 />
  </CrossReference>
</Gene>
</Database>