Method for identifying peptides using tandem mass spectra by dynamically determining the number of peptide reconstructions required

US8639447B2 · University of California San Diego · priority 2007

Patent US8639447B2 (University of California San Diego, Active): A method for identifying peptides using tandem mass spectrometry takes the spectrum for a peptide to be analyzed and uses a scoring function to score a match between the spectrum and…
Patent US8639447B2 ↗
Status Active
Priority date 2007-05-31
Filed 2008-06-02
Published (granted) 2014-01-28
Assignee University of California San Diego
Claims MS-Dictionary
Also published as US20100179766A1, WO2008151140A2, WO2008151140A3

Abstract

A method for identifying peptides using tandem mass spectrometry takes the spectrum for a peptide to be analyzed and uses a scoring function to score a match between the spectrum and each candidate peptide in a peptide database. The scoring function has a value corresponding to a number of fragment peaks in the spectrum that match fragment peaks in a spectrum of the candidate peptide. Using the match scores, a generating function of the spectrum is computed to determine the number of peptide reconstructions at each value of the scoring function. The generating function is then used to determine the number of candidate peptides for each match score and the probability of a peptide having a given match score to the spectrum. A spectral probability can be determined by calculating the total probability of all peptides with scores equal to or larger than the given match score.

Why it is here

UCSD (Kim, Gupta, Pevzner): spectral probabilities by generating functions. Mainly database search; claims 3-4 count de novo peptide reconstructions, the idea MS-Dictionary is built on.

Inventors (3)

Sangtae Kim, Nitin Gupta, Pavel A. Pevzner

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Catalogued papers it cites (2)

Matched from the patent’s 3 literature citations by the rules the paper citation graph uses.

Cited by (17 patent families, 12 organisations)

Every family, of any applicant, that cites this one, as Google Patents lists them; an assignee is given its English name.

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