WO2002052271A3 - Inverse labeling method for the rapid identification of marker/target proteins - Google Patents

Inverse labeling method for the rapid identification of marker/target proteins Download PDF

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Publication number
WO2002052271A3
WO2002052271A3 PCT/EP2001/015228 EP0115228W WO02052271A3 WO 2002052271 A3 WO2002052271 A3 WO 2002052271A3 EP 0115228 W EP0115228 W EP 0115228W WO 02052271 A3 WO02052271 A3 WO 02052271A3
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WO
WIPO (PCT)
Prior art keywords
labeling
proteins
isotope
marker
rapid identification
Prior art date
Legal status (The legal status 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 status listed.)
Ceased
Application number
PCT/EP2001/015228
Other languages
French (fr)
Other versions
WO2002052271A2 (en
Inventor
Yingqi Karen Wang
Zhixiang Ma
Douglas Frederick Quinn
Emil W Fu
Current Assignee (The listed assignees may be inaccurate. Google has not performed a legal analysis and makes no representation or warranty as to the accuracy of the list.)
Novartis Pharma GmbH Austria
Novartis AG
Original Assignee
Novartis Erfindungen Verwaltungs GmbH
Novartis AG
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
Application filed by Novartis Erfindungen Verwaltungs GmbH, Novartis AG filed Critical Novartis Erfindungen Verwaltungs GmbH
Priority to CA002432052A priority Critical patent/CA2432052A1/en
Priority to JP2002553119A priority patent/JP2004516486A/en
Priority to SI200130349T priority patent/SI1346229T1/en
Priority to DE60109490T priority patent/DE60109490T2/en
Priority to AT01988064T priority patent/ATE291231T1/en
Priority to DK01988064T priority patent/DK1346229T3/en
Priority to EP01988064A priority patent/EP1346229B1/en
Priority to AU2002240866A priority patent/AU2002240866B2/en
Publication of WO2002052271A2 publication Critical patent/WO2002052271A2/en
Publication of WO2002052271A3 publication Critical patent/WO2002052271A3/en
Anticipated expiration legal-status Critical
Ceased legal-status Critical Current

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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
    • 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
    • G01N33/58—Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing involving labelled substances
    • 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
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N2458/00—Labels used in chemical analysis of biological material
    • G01N2458/15—Non-radioactive isotope labels, e.g. for detection by mass spectrometry

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  • Life Sciences & Earth Sciences (AREA)
  • Health & Medical Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Molecular Biology (AREA)
  • Physics & Mathematics (AREA)
  • Urology & Nephrology (AREA)
  • Hematology (AREA)
  • Immunology (AREA)
  • Biomedical Technology (AREA)
  • Chemical & Material Sciences (AREA)
  • General Health & Medical Sciences (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Food Science & Technology (AREA)
  • Medicinal Chemistry (AREA)
  • Microbiology (AREA)
  • Analytical Chemistry (AREA)
  • Biochemistry (AREA)
  • Cell Biology (AREA)
  • General Physics & Mathematics (AREA)
  • Pathology (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Biotechnology (AREA)
  • Biophysics (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • Investigating Or Analysing Biological Materials (AREA)
  • Other Investigation Or Analysis Of Materials By Electrical Means (AREA)
  • Peptides Or Proteins (AREA)
  • Investigating, Analyzing Materials By Fluorescence Or Luminescence (AREA)
  • Measurement Of Radiation (AREA)
  • Preparation Of Compounds By Using Micro-Organisms (AREA)

Abstract

A novel procedure for performing protein labeling for comparative proteomics termed inverse labeling is provided for the rapid identification of marker or target proteins. With this method, to evaluate protein expression of a disease or a drug treated sample in comparison with a control sample, two converse collaborative labeling experiments are performed in parallel. In one experiment the perturbed sample (by disease or by drug treatment) is isotopically heavy-labeled, whereas, the control is isotopically heavy-labeled in the second experiment. Whem mixed and analyzed with its unlabeled or isotope light counterpart for differential comparison, a characteristic inverse labeling pattern is observed between the two parallel analyses for proteins that are differentially expressed to an apreciable level. In particularly useful embodiments, protein labeling is achieved through proteolytic 18O-incororation into peptides as a result of proteolysis performed in 18O-water, metabolic incoroporation of ?15N(or 13C and 2¿H) into proteins, and chemically tagging proteins with an isotope-coded tag reagent such as an isotope-coded affinity tag reagent.
PCT/EP2001/015228 2000-12-22 2001-12-21 Inverse labeling method for the rapid identification of marker/target proteins Ceased WO2002052271A2 (en)

Priority Applications (8)

Application Number Priority Date Filing Date Title
CA002432052A CA2432052A1 (en) 2000-12-22 2001-12-21 Inverse labeling method for the rapid identification of marker/target proteins
JP2002553119A JP2004516486A (en) 2000-12-22 2001-12-21 Reverse labeling method for rapid marker / target protein identification
SI200130349T SI1346229T1 (en) 2000-12-22 2001-12-21 Inverse labeling method for the rapid identification of marker/target proteins
DE60109490T DE60109490T2 (en) 2000-12-22 2001-12-21 REVERSED LABELING PROCEDURE FOR FAST IDENTIFICATION OF MARKER / TARGET PROTEINS
AT01988064T ATE291231T1 (en) 2000-12-22 2001-12-21 REVERSE LABELING PROCESS FOR RAPID IDENTIFICATION OF MARKER/TARGET PROTEINS
DK01988064T DK1346229T3 (en) 2000-12-22 2001-12-21 Reverse tagging method for rapid identification of marker / target proteins
EP01988064A EP1346229B1 (en) 2000-12-22 2001-12-21 Inverse labeling method for the rapid identification of marker/target proteins
AU2002240866A AU2002240866B2 (en) 2000-12-22 2001-12-21 Inverse labeling method for the rapid identification of marker/target proteins

Applications Claiming Priority (4)

Application Number Priority Date Filing Date Title
US25755900P 2000-12-22 2000-12-22
US60/257,559 2000-12-22
US33296501P 2001-11-19 2001-11-19
US60/332,965 2001-11-19

Publications (2)

Publication Number Publication Date
WO2002052271A2 WO2002052271A2 (en) 2002-07-04
WO2002052271A3 true WO2002052271A3 (en) 2002-10-31

Family

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Family Applications (1)

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PCT/EP2001/015228 Ceased WO2002052271A2 (en) 2000-12-22 2001-12-21 Inverse labeling method for the rapid identification of marker/target proteins

Country Status (11)

Country Link
US (1) US20020090652A1 (en)
EP (1) EP1346229B1 (en)
JP (1) JP2004516486A (en)
AT (1) ATE291231T1 (en)
AU (1) AU2002240866B2 (en)
CA (1) CA2432052A1 (en)
DE (1) DE60109490T2 (en)
DK (1) DK1346229T3 (en)
ES (1) ES2238493T3 (en)
PT (1) PT1346229E (en)
WO (1) WO2002052271A2 (en)

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US7846748B2 (en) * 2002-12-02 2010-12-07 The University Of North Carolina At Chapel Hill Methods of quantitation and identification of peptides and proteins
GB0228429D0 (en) * 2002-12-05 2003-01-08 Novartis Ag Organic compounds
US20040219685A1 (en) * 2003-01-30 2004-11-04 Applera Corporation Methods and mixtures pertaining to analyte determination using electrophilic labeling reagents
US20050014279A1 (en) * 2003-07-14 2005-01-20 Nguyen Hoa Duc Method of analysis of amine by mass spectrometry
JP2005181011A (en) * 2003-12-17 2005-07-07 Yoshio Yamauchi Method of analyzing protein
CA2553223A1 (en) * 2004-01-15 2005-08-04 Cedars-Sinai Medical Center System and method for expression proteomics based on isotope ratio modification
EP1711833A2 (en) * 2004-02-06 2006-10-18 Applera Corporation Preparation of biologically derived fluids for biomarker determination by mass spectrometry
EP1877569A4 (en) * 2005-05-04 2009-07-15 Univ South Florida PREDICTION OF TREATMENT RESPONSE IN CANCER SUBJECTS
US8105838B2 (en) * 2005-06-03 2012-01-31 Waters Technologies Corporation Generation and use of a catalog of polypeptide-related information for chemical analyses
US8889423B2 (en) 2005-07-29 2014-11-18 Eisai R & D Management Co., Ltd. Method for analysis of compound-binding ability of protein
JPWO2007072648A1 (en) * 2005-12-21 2009-05-28 財団法人ヒューマンサイエンス振興財団 Mass spectrometry system and mass spectrometry method
JP5535622B2 (en) * 2006-07-03 2014-07-02 フィジクロン Method and apparatus for tandem mass spectrometry without primary mass selection for multi-charged ions
JP2008039608A (en) * 2006-08-07 2008-02-21 Hitachi High-Technologies Corp Mass spectrometry system
US7879799B2 (en) * 2006-08-10 2011-02-01 Institute For Systems Biology Methods for characterizing glycoproteins and generating antibodies for same
CN101743604A (en) * 2007-06-04 2010-06-16 微软公司 Finding paired isotope groups
WO2009046204A1 (en) * 2007-10-02 2009-04-09 Metabolic Analyses, Inc. Generation and use of isotopic patterns in mass spectral phenotypic comparison of organisms
DE102009053225A1 (en) * 2009-11-06 2011-05-12 Deutsche Sporthochschule Köln Method for determining the total amount of hemoglobin in the body of a living being
US9366678B2 (en) * 2012-10-25 2016-06-14 Wisconsin Alumni Research Foundation Neutron encoded mass tags for analyte quantification
CN105301119B (en) * 2014-07-15 2017-06-06 中国科学院大连化学物理研究所 Protein amino acid sequence de novo sequencing method based on the heavy label such as two ends are non-
EP3697813A1 (en) * 2017-10-20 2020-08-26 H. Hoffnabb-La Roche Ag Copy protection for antibodies

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Also Published As

Publication number Publication date
AU2002240866B2 (en) 2005-03-24
JP2004516486A (en) 2004-06-03
US20020090652A1 (en) 2002-07-11
CA2432052A1 (en) 2002-07-04
EP1346229B1 (en) 2005-03-16
WO2002052271A2 (en) 2002-07-04
EP1346229A2 (en) 2003-09-24
PT1346229E (en) 2005-08-31
ATE291231T1 (en) 2005-04-15
DK1346229T3 (en) 2005-05-30
DE60109490D1 (en) 2005-04-21
ES2238493T3 (en) 2005-09-01
DE60109490T2 (en) 2006-04-13

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