Integration with the human genome of peptide sequences obtained by high-throughput mass spectrometry

Genome Biol. 2005;6(1):R9. doi: 10.1186/gb-2004-6-1-r9. Epub 2004 Dec 10.


A crucial aim upon the completion of the human genome is the verification and functional annotation of all predicted genes and their protein products. Here we describe the mapping of peptides derived from accurate interpretations of protein tandem mass spectrometry (MS) data to eukaryotic genomes and the generation of an expandable resource for integration of data from many diverse proteomics experiments. Furthermore, we demonstrate that peptide identifications obtained from high-throughput proteomics can be integrated on a large scale with the human genome. This resource could serve as an expandable repository for MS-derived proteome information.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, U.S. Gov't, P.H.S.

MeSH terms

  • Amino Acid Sequence
  • Animals
  • Computational Biology
  • Databases, Protein*
  • Drosophila melanogaster / chemistry
  • Drosophila melanogaster / genetics
  • Eukaryotic Cells / metabolism
  • Genome, Human*
  • Humans
  • Mass Spectrometry / methods*
  • Peptides / analysis*
  • Peptides / genetics*
  • Proteome*
  • Proteomics / methods*
  • Software


  • Peptides
  • Proteome