Protein identification using sorcerer 2 and SEQUEST

Current Protocols in Bioinformatics

Volumn , Issue SUPPL. 28, 2009, Pages

  Lundgren, Deborah H ^a   Martinez, Harryl ^b   Wright, Michael E ^b   Han, David K ^a  

^a UNIVERSITY OF CONNECTICUT HEALTH CENTER   (United States)

^b UNIVERSITY OF IOWA   (United States)

Author keywords

Ascore; False discovery rate; Post translational modifications; Proteomics; Quantification; Scaffold; SEQUEST; Sorcerer; TPP

Indexed keywords

METHIONINE; TRYPSIN;

COMMUNICATION PROTOCOL; COMPUTER PROGRAM; DATA ANALYSIS SOFTWARE; GENETIC ALGORITHM; GENETIC DATABASE; GENETIC RESOURCE; HUMAN; MASS SPECTROMETRY; PRIORITY JOURNAL; PROTEIN ANALYSIS; REVIEW; SEARCH ENGINE; WEB BROWSER;

ALGORITHMS; AMINO ACID SEQUENCE; MASS SPECTROMETRY; MOLECULAR SEQUENCE DATA; PEPTIDE MAPPING; PROTEINS; SEQUENCE ANALYSIS, PROTEIN; SOFTWARE; SOFTWARE DESIGN;

EID: 75949116598     PISSN: 19343396     EISSN: 1934340X     Source Type: Journal    
DOI: 10.1002/0471250953.bi1303s10     Document Type: Review

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20. Beausoleil et al.,. See above Description of Ascore algorithm for phosphorylation site localization.
21. Eng et al.,. See above. The original description of the SEQUEST algorithm.
22. Kll et al.,. See above. Good overview of methods associating statistical scores with results of MS/MS experiments.
23. Peng et al.,. See above. Proposes new criteria for decreasing false-positive results in SEQUEST-based peptide identification.
24. Washburn et al.,. See above. Widely used criteria for SEQUEST-based peptide identification.
25. http://proteomics2.com Portal for support information on using Sorcerer and for general information on proteomics.
26. http://tools.proteomecenter.org/software.php Web site for description and downloads of TPP software tools, including pep and prot XML Viewers.
27. http://www.proteomesoftware.com/tutorial/scaffold-users-guide-2-1.pdf Downloadable tutorial on Scaffold.