Correct false discovery rate estimation for peptides identified via mass spectrometry: Supplementary data

Lukas Käll, Michael J. MacCoss, William Stafford Noble

Submitted for publication

• 35550 tandem mass spectra from a yeast whole cell lysate (MS2 format)
• Yeast proteome
• Results of searching the spectra against the yeast proteome (SQT format)
• The SEQUEST parameter file
• Six shuffled versions of the yeast proteome (1, 2, 3, 4, 5, 6)
• Results of search the spectra against the six shuffled versions of the yeast proteome (1, 2, 3, 4, 5, 6)