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WO2007144606A3 - Mass spectrometry biomarker assay - Google Patents

Mass spectrometry biomarker assay Download PDF

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Publication number
WO2007144606A3
WO2007144606A3 PCT/GB2007/002187 GB2007002187W WO2007144606A3 WO 2007144606 A3 WO2007144606 A3 WO 2007144606A3 GB 2007002187 W GB2007002187 W GB 2007002187W WO 2007144606 A3 WO2007144606 A3 WO 2007144606A3
Authority
WO
WIPO (PCT)
Prior art keywords
signal
biomarker
mass
con
intensity
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/GB2007/002187
Other languages
French (fr)
Other versions
WO2007144606A2 (en
Inventor
Toshihide Nishimura
Atsushi Ogiwara
Takeshi Kawamura
Takao Kawakami
Yutaka Kyono
Mitsuhiro Kanazawa
Fredrik Nyberg
Gyoergy Marko-Varga
Hisase Anyoji
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.)
AstraZeneca UK Ltd
Medical Proteoscope Co Ltd
Original Assignee
AstraZeneca UK Ltd
Medical Proteoscope Co Ltd
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 AstraZeneca UK Ltd, Medical Proteoscope Co Ltd filed Critical AstraZeneca UK Ltd
Priority to AU2007258970A priority Critical patent/AU2007258970A1/en
Priority to BRPI0711967-4A priority patent/BRPI0711967A2/en
Priority to CA002651934A priority patent/CA2651934A1/en
Priority to JP2009514893A priority patent/JP2009540319A/en
Priority to MX2008015158A priority patent/MX2008015158A/en
Priority to EP07733193A priority patent/EP2035829A2/en
Publication of WO2007144606A2 publication Critical patent/WO2007144606A2/en
Publication of WO2007144606A3 publication Critical patent/WO2007144606A3/en
Anticipated expiration legal-status Critical
Ceased legal-status Critical Current

Links

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
    • G01N33/68—Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing involving proteins, peptides or amino acids
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N21/00—Investigating or analysing materials by the use of optical means, i.e. using sub-millimetre waves, infrared, visible or ultraviolet light
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N30/00—Investigating or analysing materials by separation into components using adsorption, absorption or similar phenomena or using ion-exchange, e.g. chromatography or field flow fractionation
    • G01N30/02—Column chromatography
    • G01N30/62—Detectors specially adapted therefor
    • G01N30/72—Mass spectrometers
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N30/00—Investigating or analysing materials by separation into components using adsorption, absorption or similar phenomena or using ion-exchange, e.g. chromatography or field flow fractionation
    • G01N30/02—Column chromatography
    • G01N30/62—Detectors specially adapted therefor
    • G01N30/74—Optical detectors
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N30/00—Investigating or analysing materials by separation into components using adsorption, absorption or similar phenomena or using ion-exchange, e.g. chromatography or field flow fractionation
    • G01N30/02—Column chromatography
    • G01N30/62—Detectors specially adapted therefor
    • G01N30/72—Mass spectrometers
    • G01N30/7233—Mass spectrometers interfaced to liquid or supercritical fluid chromatograph

Landscapes

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

Abstract

The invention provides a method for determining the presence of one or more polypeptide biomarkers in a sample, comprising the steps of: (a) subjecting the sample to a mass spectrometric (MS) analysis and recording retention time index and corresponding mass for each signal detected; (b) con-elating the mass corresponding to each signal to a reference database of biomarker masses to form a con-elation between each signal and a reference biomarker, and discarding those signals whose masses do not correlate to a reference boimarker mass; (c) storing those signals whose masses correlate with a reference biomarker; (d) confirming the con-elation between each stored signal and a reference biomarker by matching the MS spectrum of each signal with the MS spectrum of the reference biomarker in the database using a similarity measure, to define a set of positively correlating signals; (d) measuring the intensity of each positivley coreelating signal and scoring its absolute signal intensity or its relative signal intensity using a discrimination function; (e) applying a threshold to the score values obtained from the discrimination function to detemiine the presence or absence of the biomarker.
PCT/GB2007/002187 2006-06-13 2007-06-13 Mass spectrometry biomarker assay Ceased WO2007144606A2 (en)

Priority Applications (6)

Application Number Priority Date Filing Date Title
AU2007258970A AU2007258970A1 (en) 2006-06-13 2007-06-13 Mass spectrometry biomarker assay
BRPI0711967-4A BRPI0711967A2 (en) 2006-06-13 2007-06-13 mass spectrometry biomarker assay
CA002651934A CA2651934A1 (en) 2006-06-13 2007-06-13 Mass spectrometry biomarker assay
JP2009514893A JP2009540319A (en) 2006-06-13 2007-06-13 Mass spectrometry biomarker assay
MX2008015158A MX2008015158A (en) 2006-06-13 2007-06-13 Mass spectrometry biomarker assay.
EP07733193A EP2035829A2 (en) 2006-06-13 2007-06-13 Mass spectrometry biomarker assay

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
GBGB0611669.3A GB0611669D0 (en) 2006-06-13 2006-06-13 Mass spectrometry biomarker assay
GB0611669.3 2006-06-13

Publications (2)

Publication Number Publication Date
WO2007144606A2 WO2007144606A2 (en) 2007-12-21
WO2007144606A3 true WO2007144606A3 (en) 2008-04-03

Family

ID=36745797

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/GB2007/002187 Ceased WO2007144606A2 (en) 2006-06-13 2007-06-13 Mass spectrometry biomarker assay

Country Status (10)

Country Link
EP (1) EP2035829A2 (en)
JP (1) JP2009540319A (en)
KR (1) KR20090068199A (en)
CN (1) CN101611313A (en)
AU (1) AU2007258970A1 (en)
BR (1) BRPI0711967A2 (en)
CA (1) CA2651934A1 (en)
GB (1) GB0611669D0 (en)
MX (1) MX2008015158A (en)
WO (1) WO2007144606A2 (en)

Families Citing this family (28)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CN102138069A (en) * 2008-07-23 2011-07-27 P设备有限公司 Portable plasma-based diagnostic device and diagnostic method
GB0906698D0 (en) 2009-04-17 2009-06-03 Queen Mary & Westfield College Method for quantifying modified peptides
KR101144237B1 (en) * 2009-12-29 2012-05-11 한국기초과학지원연구원 Method for discovering pharmacologically active substance of natural products using high resolution mass spectrometry and pharmacologically active test
GB201006360D0 (en) * 2010-04-16 2010-06-02 Immatics Biotechnologies Gmbh Method for differentially quantifying naturally processed HLA-restricted peptides for cancer, autoimmune and infectious diseases immunotherapy development
US9141756B1 (en) 2010-07-20 2015-09-22 University Of Southern California Multi-scale complex systems transdisciplinary analysis of response to therapy
CN102201039A (en) * 2010-08-19 2011-09-28 上海聚类生物科技有限公司 Method for analyzing linear ion trap quadrupole (LTQ) data
GB201204278D0 (en) 2012-03-09 2012-04-25 Queen Mary & Westfield College Method
FR3016461B1 (en) * 2014-01-10 2017-06-23 Imabiotech METHOD FOR PROCESSING MOLECULAR IMAGING DATA AND CORRESPONDING DATA SERVER
DE102014000646B4 (en) 2014-01-17 2023-05-11 Bruker Daltonics GmbH & Co. KG Mass spectrometric resistance determination by metabolism measurement
GB201509313D0 (en) * 2015-05-29 2015-07-15 Micromass Ltd Sample mass spectrum analysis
GB201520178D0 (en) 2015-11-16 2015-12-30 Univ London Queen Mary Method
JP6613490B2 (en) * 2016-02-19 2019-12-04 国立大学法人 宮崎大学 Detection method of adenocarcinoma
WO2017173390A1 (en) * 2016-03-31 2017-10-05 Applied Proteomics, Inc. Biomarker database generation and use
CA3025127A1 (en) * 2016-05-24 2017-11-30 In Ovo B.V. Method and system for the non-destructive in ovo determination of fowl gender
WO2018033894A1 (en) * 2016-08-19 2018-02-22 Monash University Spectroscopic systems and methods for the identification and quantification of pathogens
US9905405B1 (en) * 2017-02-13 2018-02-27 Thermo Finnigan Llc Method of generating an inclusion list for targeted mass spectrometric analysis
US12473587B2 (en) 2017-04-06 2025-11-18 Complete Omics Inc. Nucleic acid capture method
US10788484B2 (en) * 2017-06-29 2020-09-29 Quanticision Diagnostics Inc. Apparatus and method for absolute quantification of biomarkers for solid tumor diagnosis
MY202410A (en) 2017-09-01 2024-04-27 Venn Biosciences Corp Identification and use of glycopeptides as biomarkers for diagnosis and treatment monitoring
CN111316106A (en) * 2017-09-05 2020-06-19 迪森德克斯公司 Automated sample workflow gating and data analysis
GB2569805B (en) * 2017-12-22 2023-03-08 Asymptote Ltd Method and system relating to cooling conditions for a biological sample
US12276666B2 (en) 2018-01-19 2025-04-15 Thermo Finnigan Llc Method of generating an inclusion list for targeted mass spectrometric analysis
JP7214756B2 (en) * 2018-05-15 2023-01-30 ベンタナ メディカル システムズ， インコーポレイテッド Quantification of signal in stain aggregates
WO2020106218A1 (en) * 2018-11-23 2020-05-28 Agency For Science, Technology And Research Method for identifying an unknown biological sample from multiple attributes
CN111672658B (en) * 2020-06-08 2022-05-13 惠州市新泓威科技有限公司 Method for detecting and controlling optimal atomization temperature of electronic atomization equipment and electronic atomization equipment
EP4047371A1 (en) * 2021-02-18 2022-08-24 Thermo Fisher Scientific (Bremen) GmbH Method and apparatus for analysing samples of biomolecules using mass spectrometry with data-independent acquisition
EP4308918A4 (en) * 2021-03-18 2025-01-08 Complete Omics International Inc. METHODS AND SYSTEMS FOR DETECTING AND QUANTIFYING A LARGE NUMBER OF MOLECULAR BIOMARKERS FROM A BODY FLUID SAMPLE
KR102632163B1 (en) 2022-04-13 2024-02-01 오보젠 주식회사 Device for detcting and selecting an egg embryo

Citations (4)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2004061410A2 (en) * 2002-12-18 2004-07-22 Ciphergen Biosystems, Inc. Serum biomarkers in lung cancer
DE10324149A1 (en) * 2003-05-26 2004-12-16 Imat-Uve Gmbh Screening analysis for unknown substance, especially non-metal automobile components, uses gas or liquid chromatography with mass spectrometry and databases of known retention indexes and mass spectra and substances
WO2005098445A2 (en) * 2004-03-30 2005-10-20 Eastern Virginia Medical School Lung cancer biomarkers
WO2005114930A2 (en) * 2004-05-20 2005-12-01 Waters Investments Limited Method and apparatus for identifying proteins in mixtures

Patent Citations (4)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2004061410A2 (en) * 2002-12-18 2004-07-22 Ciphergen Biosystems, Inc. Serum biomarkers in lung cancer
DE10324149A1 (en) * 2003-05-26 2004-12-16 Imat-Uve Gmbh Screening analysis for unknown substance, especially non-metal automobile components, uses gas or liquid chromatography with mass spectrometry and databases of known retention indexes and mass spectra and substances
WO2005098445A2 (en) * 2004-03-30 2005-10-20 Eastern Virginia Medical School Lung cancer biomarkers
WO2005114930A2 (en) * 2004-05-20 2005-12-01 Waters Investments Limited Method and apparatus for identifying proteins in mixtures

Also Published As

Publication number Publication date
WO2007144606A2 (en) 2007-12-21
CN101611313A (en) 2009-12-23
MX2008015158A (en) 2009-04-30
BRPI0711967A2 (en) 2012-01-24
AU2007258970A1 (en) 2007-12-21
EP2035829A2 (en) 2009-03-18
JP2009540319A (en) 2009-11-19
CA2651934A1 (en) 2007-12-21
GB0611669D0 (en) 2006-07-19
KR20090068199A (en) 2009-06-25

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