WO2002021139A3 - Identification automatisee de peptides - Google Patents

Identification automatisee de peptides Download PDF

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Publication number
WO2002021139A3
WO2002021139A3 PCT/GB2001/004034 GB0104034W WO0221139A3 WO 2002021139 A3 WO2002021139 A3 WO 2002021139A3 GB 0104034 W GB0104034 W GB 0104034W WO 0221139 A3 WO0221139 A3 WO 0221139A3
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WO
WIPO (PCT)
Prior art keywords
peptide
computer
identifying
database
present
Prior art date
Application number
PCT/GB2001/004034
Other languages
English (en)
Other versions
WO2002021139A2 (fr
Inventor
Robert Reid Townsend
Andrew William Robinson
Original Assignee
Oxford Glycosciences Uk Ltd
Robert Reid Townsend
Andrew William Robinson
Priority date (The priority date is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the date listed.)
Filing date
Publication date
Priority claimed from GB0022136A external-priority patent/GB0022136D0/en
Application filed by Oxford Glycosciences Uk Ltd, Robert Reid Townsend, Andrew William Robinson filed Critical Oxford Glycosciences Uk Ltd
Priority to AU2001286059A priority Critical patent/AU2001286059A1/en
Priority to EP01965415A priority patent/EP1317765A2/fr
Publication of WO2002021139A2 publication Critical patent/WO2002021139A2/fr
Publication of WO2002021139A3 publication Critical patent/WO2002021139A3/fr

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Classifications

    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N33/00—Investigating or analysing materials by specific methods not covered by groups G01N1/00 - G01N31/00
    • G01N33/48—Biological material, e.g. blood, urine; Haemocytometers
    • G01N33/50—Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing
    • G01N33/68—Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing involving proteins, peptides or amino acids
    • G01N33/6803—General methods of protein analysis not limited to specific proteins or families of proteins
    • G01N33/6848—Methods of protein analysis involving mass spectrometry
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B30/00—ICT specially adapted for sequence analysis involving nucleotides or amino acids
    • G16B30/10—Sequence alignment; Homology search
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N33/00—Investigating or analysing materials by specific methods not covered by groups G01N1/00 - G01N31/00
    • G01N33/48—Biological material, e.g. blood, urine; Haemocytometers
    • G01N33/50—Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing
    • G01N33/68—Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing involving proteins, peptides or amino acids
    • G01N33/6803—General methods of protein analysis not limited to specific proteins or families of proteins
    • G01N33/6818—Sequencing of polypeptides
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B30/00—ICT specially adapted for sequence analysis involving nucleotides or amino acids
    • G—PHYSICS
    • G06—COMPUTING; CALCULATING OR COUNTING
    • G06F—ELECTRIC DIGITAL DATA PROCESSING
    • G06F2218/00—Aspects of pattern recognition specially adapted for signal processing
    • G06F2218/12—Classification; Matching

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  • Life Sciences & Earth Sciences (AREA)
  • Health & Medical Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Physics & Mathematics (AREA)
  • Chemical & Material Sciences (AREA)
  • Molecular Biology (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Biophysics (AREA)
  • Biotechnology (AREA)
  • Analytical Chemistry (AREA)
  • General Health & Medical Sciences (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • Urology & Nephrology (AREA)
  • Biomedical Technology (AREA)
  • Hematology (AREA)
  • Immunology (AREA)
  • Theoretical Computer Science (AREA)
  • Evolutionary Biology (AREA)
  • Medical Informatics (AREA)
  • Cell Biology (AREA)
  • Microbiology (AREA)
  • Food Science & Technology (AREA)
  • Medicinal Chemistry (AREA)
  • Biochemistry (AREA)
  • General Physics & Mathematics (AREA)
  • Pathology (AREA)
  • Other Investigation Or Analysis Of Materials By Electrical Means (AREA)
  • Management, Administration, Business Operations System, And Electronic Commerce (AREA)
  • Peptides Or Proteins (AREA)

Abstract

L'invention porte sur un procédé entièrement automatique, géré par ordinateur et indépendamment de l'utilisateur permettant d'identifier et caractériser une séquence de peptide présente dans une base de données de peptides correspondant à un peptide expérimental. Le procédé identifie la séquence appariée, si présente dans base de données, sans nécessiter d'observateur spécialisé pour choisir dans la liste des appariements possibles. En recourant à une rétrolecture automatique, le procédé peut identifier de manière univoque une séquence de peptide de la base de données en se basant sur une seule séquence de peptide appariée. Le procédé permet également de faire correspondre des données de spectre de masse du peptide ou de la base de données: pour identifier sans ambiguïté les exons, pour déterminer un cadre un cadre de lecture idoine, pour identifier les artéfacts et les erreurs de séquences, pour identifier les mutations et les polymorphismes, pour identifier les modifications post-transductionnelles, et pour identifier les frontières exons/introns. L'invention porte également sur un support lisible par ordinateur comprenant des instructions d'exécution dudit procédé, sur un ordinateur à cet effet, une base de données de peptides ou d'acides nucléiques, un fichier ou une liste lisibles par ordinateur ou un écran affichant les informations résultant de l'exécution dudit procédé.
PCT/GB2001/004034 2000-09-08 2001-09-10 Identification automatisee de peptides WO2002021139A2 (fr)

Priority Applications (2)

Application Number Priority Date Filing Date Title
AU2001286059A AU2001286059A1 (en) 2000-09-08 2001-09-10 Automated identification of peptides
EP01965415A EP1317765A2 (fr) 2000-09-08 2001-09-10 Identification automatisee de peptides

Applications Claiming Priority (6)

Application Number Priority Date Filing Date Title
GB0022136.6 2000-09-08
GB0022136A GB0022136D0 (en) 2000-09-08 2000-09-08 A method for the sequencing indentification and characterization of peptides or proteins and uses thereof
US23227300P 2000-09-13 2000-09-13
US60/232,273 2000-09-13
US72440500A 2000-11-28 2000-11-28
US09/724,405 2000-11-28

Publications (2)

Publication Number Publication Date
WO2002021139A2 WO2002021139A2 (fr) 2002-03-14
WO2002021139A3 true WO2002021139A3 (fr) 2003-02-06

Family

ID=27255879

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/GB2001/004034 WO2002021139A2 (fr) 2000-09-08 2001-09-10 Identification automatisee de peptides

Country Status (3)

Country Link
EP (1) EP1317765A2 (fr)
AU (1) AU2001286059A1 (fr)
WO (1) WO2002021139A2 (fr)

Families Citing this family (16)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2003038728A2 (fr) * 2001-11-01 2003-05-08 Biobridge Computing Ab Systeme informatique et procede utilisant des donnees de spectrometrie de masse et une base de donnees proteine pour l'identification de proteines inconnues
GB0212470D0 (en) 2002-05-30 2002-07-10 Shimadzu Res Lab Europe Ltd Mass spectrometry
AU2002345287A1 (en) * 2002-07-10 2004-02-02 Institut Suisse De Bioinformatique Peptide and protein identification method
DE60325482D1 (de) 2002-08-22 2009-02-05 Applera Corp Verfahren zur charakterisierung von biomolekülen mittels resultat-gesteuerter strategie
JP3817523B2 (ja) * 2003-02-14 2006-09-06 株式会社日立製作所 質量分析データ解析システム
GB0411687D0 (en) * 2004-05-25 2004-06-30 Oxford Gene Tech Ip Ltd Peptide mass spectrometry
DE102004051016A1 (de) * 2004-10-20 2006-05-04 Protagen Ag Verfahren und System zur Aufklärung der Primärstruktur von Biopolymeren
CA2689848A1 (fr) 2006-02-28 2007-09-07 Phenomenome Discoveries Inc. Methodes permettant de diagnostiquer la demence et autres troubles neurologiques
DE102006041644B4 (de) * 2006-08-23 2011-12-01 Panatecs Gmbh Verfahren zur Detektion von Modifikationen in einem Protein oder Peptid
AU2007346587C1 (en) 2007-02-08 2015-01-22 Med-Life Discoveries Lp Methods for the treatment of Senile Dementia of the Alzheimer's Type
US10466248B2 (en) * 2013-09-23 2019-11-05 The Trustees Of Columbia University In The City Of New York High-throughput single molecule protein identification
CN103512877B (zh) * 2013-10-16 2016-03-30 长春新产业光电技术有限公司 一种拉曼光谱物质检测快速样本查找方法
US9682123B2 (en) 2013-12-20 2017-06-20 The Trustees Of Columbia University In The City Of New York Methods of treating metabolic disease
ES2950426T3 (es) 2015-08-12 2023-10-09 Univ Columbia Procedimientos de tratamiento de la depleción de volumen y la lesión renal
EP3679378A2 (fr) * 2017-09-05 2020-07-15 DiscernDx, Inc. Portillonnage de flux de travail d'échantillon automatisé et analyse de données
EP3794599A4 (fr) * 2018-06-11 2022-02-23 Merck Sharp & Dohme Corp. Procédé de sommet coupé permettant d'identifier des sous-structures de molécules complexes

Citations (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO1999062930A2 (fr) * 1998-06-03 1999-12-09 Millennium Pharmaceuticals, Inc. Sequençage de proteines au moyen de la spectroscopie de masse en tandem

Patent Citations (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO1999062930A2 (fr) * 1998-06-03 1999-12-09 Millennium Pharmaceuticals, Inc. Sequençage de proteines au moyen de la spectroscopie de masse en tandem

Non-Patent Citations (3)

* Cited by examiner, † Cited by third party
Title
BARTELS C: "FAST ALGORITHM FOR PEPTIDE SEQUENCING BY MASS SPECTROSCOPY", BIOMEDICAL AND ENVIRONMENTAL MASS SPECTROMETRY, WILEY, LONDON, GB, vol. 19, 1990, pages 363 - 368, XP001051563, ISSN: 0887-6134 *
DONGRE A R ET AL: "Emerging tandem-mass-spectrometry techniques for the rapid identification of proteins", TRENDS IN BIOTECHNOLOGY, ELSEVIER PUBLICATIONS, CAMBRIDGE, GB, vol. 15, no. 10, 1 October 1997 (1997-10-01), pages 418 - 425, XP004090548, ISSN: 0167-7799 *
LINDH I ET AL: "De novo sequencing of proteolytic peptides by a combination of C-terminal derivatization and nano-electrospray/collision-induced dissociation mass spectrometry", JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY, ELSEVIER SCIENCE INC., NEW YORK, NY, US, vol. 11, no. 8, August 2000 (2000-08-01), pages 673 - 686, XP004210133, ISSN: 1044-0305 *

Also Published As

Publication number Publication date
EP1317765A2 (fr) 2003-06-11
AU2001286059A1 (en) 2002-03-22
WO2002021139A2 (fr) 2002-03-14

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