Methods for quantification and de novo polypeptide sequencing by mass spectrometry

US6829539B2 · Institute for Systems Biology · priority 2001

Patent US6829539B2 (Institute for Systems Biology, Expired - Lifetime): The invention provides a method of determining an amino acid sequence of a parent polypeptide. The method consists of: (a) obtaining mass spectra of two or more differentially…
Patent US6829539B2 ↗
Status Expired - Lifetime
Priority date 2001-04-13
Filed 2001-04-13
Published (granted) 2004-12-07
Assignee Institute for Systems Biology
Also published as AU2002256211A1, US20020168682A1, US20060020393A1, WO2002083923A2, WO2002083923A3

Abstract

The invention provides a method of determining an amino acid sequence of a parent polypeptide. The method consists of: (a) obtaining mass spectra of two or more differentially labeled polypeptide fragments of a parent polypeptide; (b) assigning a mass and a weighting characteristic to two or more paired signals having a difference in mass corresponding to an integer value of said differential label, the weighting characteristic combining properties of each signal within said paired signals; (c) selecting from the mass spectra a paired signal having the assigned mass and a weighting characteristic distinguishable from non-peptide signals, the assigned mass indicating the mass of a polypeptide fragment within the spectra; (d) determining the difference in mass of the polypeptide fragments; (e) assigning the mass differences a satisfying amino acid name, and (f) orienting the assigned amino acid names. Also provided is a method of determining the amino acid sequence of a polypeptide. The method consists of: (a) constructing a graph from mass spectra of two or more differentially labeled polypeptides, the graph comprising a node with mass m, number of labels n, intensity i, and mass differential of labels delta; (b) creating a node corresponding to a paired signal having masses of about m and about m+ndelta, and (c) adding a labeled weighted directed edge to the graph between any two nodes corresponding to a mass of an amino acid, the labeled weighted directed edge combining properties of the paired signals.

Why it is here

Institute for Systems Biology: de novo sequencing from a graph built over spectra of differentially labelled polypeptides, pairing signals by their label mass difference.

Inventors (2)

David R. Goodlett, Andrew Keller

An inventor links to an author page only where the same person is evident, never on a name alone.

Catalogued papers it cites (3)

Matched from the patent’s 15 literature citations by the rules the paper citation graph uses.

Catalogued patents it cites (2)

  • US6582965B1 Method for de novo peptide sequence determination
  • US6271037B1 Method and product for the sequence determination of peptides using a mass spectrometer

Cited by catalogued patents (5)

  • US7723917B2 Method of de novo sequencing of peptide using the MALDI mass spectrometry, method and apparatus for preparing sample for MALDI mass spectrometry
  • US20050074816A1 Method for protein identification from tandem mass spectral employing both spectrum comparison and de novo sequencing for biomedical applications
  • RU2498443C2 Method of peptide sequencing by mass-spectrometry and defining of their amino acid sequences
  • RU2650639C2 Method of mass-spectrometric sequencing of peptides with the preferential b-ion formation
  • CN106645437B De novo sequencing method based on chemically modified and isotopically labeled polypeptide amino acid sequences

Cited by (18 patent families, 15 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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