WO2003006951A3 - System and method of determining proteomic differences - Google Patents
System and method of determining proteomic differences Download PDFInfo
- Publication number
- WO2003006951A3 WO2003006951A3 PCT/US2002/022320 US0222320W WO03006951A3 WO 2003006951 A3 WO2003006951 A3 WO 2003006951A3 US 0222320 W US0222320 W US 0222320W WO 03006951 A3 WO03006951 A3 WO 03006951A3
- Authority
- WO
- WIPO (PCT)
- Prior art keywords
- peptide
- expression
- populations
- spectra
- proteomic differences
- Prior art date
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
- G01N33/6851—Methods of protein analysis involving laser desorption ionisation 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
- 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
- G16B20/00—ICT specially adapted for functional genomics or proteomics, e.g. genotype-phenotype associations
- G16B20/30—Detection of binding sites or motifs
-
- 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
- G16B20/00—ICT specially adapted for functional genomics or proteomics, e.g. genotype-phenotype associations
- G16B20/50—Mutagenesis
-
- 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
- G01N2030/022—Column chromatography characterised by the kind of separation mechanism
- G01N2030/027—Liquid chromatography
-
- 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
-
- 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
- G01N30/724—Nebulising, aerosol formation or ionisation
- G01N30/7266—Nebulising, aerosol formation or ionisation by electric field, e.g. electrospray
-
- 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
- G16B20/00—ICT specially adapted for functional genomics or proteomics, e.g. genotype-phenotype associations
-
- Y—GENERAL TAGGING OF NEW TECHNOLOGICAL DEVELOPMENTS; GENERAL TAGGING OF CROSS-SECTIONAL TECHNOLOGIES SPANNING OVER SEVERAL SECTIONS OF THE IPC; TECHNICAL SUBJECTS COVERED BY FORMER USPC CROSS-REFERENCE ART COLLECTIONS [XRACs] AND DIGESTS
- Y10—TECHNICAL SUBJECTS COVERED BY FORMER USPC
- Y10T—TECHNICAL SUBJECTS COVERED BY FORMER US CLASSIFICATION
- Y10T436/00—Chemistry: analytical and immunological testing
- Y10T436/13—Tracers or tags
-
- Y—GENERAL TAGGING OF NEW TECHNOLOGICAL DEVELOPMENTS; GENERAL TAGGING OF CROSS-SECTIONAL TECHNOLOGIES SPANNING OVER SEVERAL SECTIONS OF THE IPC; TECHNICAL SUBJECTS COVERED BY FORMER USPC CROSS-REFERENCE ART COLLECTIONS [XRACs] AND DIGESTS
- Y10—TECHNICAL SUBJECTS COVERED BY FORMER USPC
- Y10T—TECHNICAL SUBJECTS COVERED BY FORMER US CLASSIFICATION
- Y10T436/00—Chemistry: analytical and immunological testing
- Y10T436/24—Nuclear magnetic resonance, electron spin resonance or other spin effects or mass spectrometry
Abstract
Priority Applications (2)
Application Number | Priority Date | Filing Date | Title |
---|---|---|---|
EP02759149A EP1428019A4 (en) | 2001-07-13 | 2002-07-12 | System and method of determining proteomic differences |
CA002453725A CA2453725A1 (en) | 2001-07-13 | 2002-07-12 | System and method of determining proteomic differences |
Applications Claiming Priority (4)
Application Number | Priority Date | Filing Date | Title |
---|---|---|---|
US30516901P | 2001-07-13 | 2001-07-13 | |
US60/305,169 | 2001-07-13 | ||
US35952402P | 2002-02-21 | 2002-02-21 | |
US60/359,524 | 2002-02-21 |
Publications (3)
Publication Number | Publication Date |
---|---|
WO2003006951A2 WO2003006951A2 (en) | 2003-01-23 |
WO2003006951A3 true WO2003006951A3 (en) | 2003-05-22 |
WO2003006951A9 WO2003006951A9 (en) | 2004-05-13 |
Family
ID=26974441
Family Applications (1)
Application Number | Title | Priority Date | Filing Date |
---|---|---|---|
PCT/US2002/022320 WO2003006951A2 (en) | 2001-07-13 | 2002-07-12 | System and method of determining proteomic differences |
Country Status (4)
Country | Link |
---|---|
US (2) | US20030068825A1 (en) |
EP (1) | EP1428019A4 (en) |
CA (1) | CA2453725A1 (en) |
WO (1) | WO2003006951A2 (en) |
Families Citing this family (24)
Publication number | Priority date | Publication date | Assignee | Title |
---|---|---|---|---|
US7166436B2 (en) * | 2001-01-26 | 2007-01-23 | Syngenta Participations, Ag | Differential labeling for quantitative analysis of complex protein mixtures |
US6969757B2 (en) * | 2001-01-26 | 2005-11-29 | Syngenta Participations Ag | Differential labeling for quantitative analysis of complex protein mixtures |
CA2349265A1 (en) * | 2001-05-30 | 2002-11-30 | Andrew Emili | Protein expression profile database |
CA2393726A1 (en) * | 2002-07-16 | 2004-01-16 | Steven J. Locke | Quantitative proteomics via isotopically differentiated derivatization |
JP3917625B2 (en) * | 2003-02-14 | 2007-05-23 | 富士通株式会社 | Data analysis device |
US8507285B2 (en) * | 2003-03-13 | 2013-08-13 | Agilent Technologies, Inc. | Methods and devices for identifying biopolymers using mass spectroscopy |
EP1553515A1 (en) * | 2004-01-07 | 2005-07-13 | BioVisioN AG | Methods and system for the identification and characterization of peptides and their functional relationships by use of measures of correlation |
US20050267689A1 (en) * | 2003-07-07 | 2005-12-01 | Maxim Tsypin | Method to automatically identify peak and monoisotopic peaks in mass spectral data for biomolecular applications |
JP4393206B2 (en) * | 2004-01-19 | 2010-01-06 | 株式会社日立ハイテクノロジーズ | Data processor for mass spectrometer |
US20050251774A1 (en) * | 2004-05-07 | 2005-11-10 | Shah Gaurav R | Circuit design property storage and manipulation |
US20080044857A1 (en) * | 2004-05-25 | 2008-02-21 | The Gov Of Usa As Represented By The Secretary Of | Methods For Making And Using Mass Tag Standards For Quantitative Proteomics |
US7736905B2 (en) * | 2006-03-31 | 2010-06-15 | Biodesix, Inc. | Method and system for determining whether a drug will be effective on a patient with a disease |
WO2007149498A2 (en) * | 2006-06-21 | 2007-12-27 | Northeastern University | Narrow bore porous layer open tube capillary column and uses thereof |
EP2087433A4 (en) * | 2006-11-14 | 2017-11-29 | ABB, Inc. | System for storing and presenting sensor and spectral data for batch processes |
US7595485B1 (en) * | 2007-02-07 | 2009-09-29 | Thermo Finnigan Llc | Data analysis to provide a revised data set for use in peptide sequencing determination |
US7897405B2 (en) * | 2008-02-11 | 2011-03-01 | Thermo Finnigan Llc | Method for identifying the elution time of an analyte |
CN102770760A (en) * | 2010-02-24 | 2012-11-07 | 佰欧迪塞克斯公司 | Cancer patient selection for administration of therapeutic agents using mass spectral analysis |
WO2012058632A1 (en) * | 2010-10-29 | 2012-05-03 | Thermo Fisher Scientific Oy | Automated system for sample preparation and analysis |
US9074236B2 (en) | 2012-05-01 | 2015-07-07 | Oxoid Limited | Apparatus and methods for microbial identification by mass spectrometry |
US9864834B2 (en) | 2013-03-15 | 2018-01-09 | Syracuse University | High-resolution melt curve classification using neural networks |
WO2018232043A1 (en) * | 2017-06-14 | 2018-12-20 | Discerndx, Inc. | Tandem identification engine |
CN111164422B (en) * | 2017-08-07 | 2023-05-02 | 新加坡科技研究局 | Rapid analysis and identification of lipids from liquid chromatography-mass spectrometry (LC-MS) data |
EP3660504A1 (en) * | 2018-11-30 | 2020-06-03 | Thermo Fisher Scientific (Bremen) GmbH | Systems and methods for determining mass of an ion species |
CN110163257A (en) * | 2019-04-23 | 2019-08-23 | 百度在线网络技术(北京)有限公司 | Method, apparatus, equipment and the computer storage medium of drawing-out structure information |
Family Cites Families (10)
Publication number | Priority date | Publication date | Assignee | Title |
---|---|---|---|---|
US6017693A (en) * | 1994-03-14 | 2000-01-25 | University Of Washington | Identification of nucleotides, amino acids, or carbohydrates by mass spectrometry |
US5885841A (en) * | 1996-09-11 | 1999-03-23 | Eli Lilly And Company | System and methods for qualitatively and quantitatively comparing complex admixtures using single ion chromatograms derived from spectroscopic analysis of such admixtures |
GB9624927D0 (en) * | 1996-11-29 | 1997-01-15 | Oxford Glycosciences Uk Ltd | Gels and their use |
US6107693A (en) * | 1997-09-19 | 2000-08-22 | Solo Energy Corporation | Self-contained energy center for producing mechanical, electrical, and heat energy |
AU755334C (en) * | 1998-08-25 | 2004-02-26 | University Of Washington | Rapid quantitative analysis of proteins or protein function in complex mixtures |
US5993662A (en) * | 1998-08-28 | 1999-11-30 | Thetagen, Inc. | Method of purifying and identifying a large multiplicity of chemical reaction products simultaneously |
US6147344A (en) * | 1998-10-15 | 2000-11-14 | Neogenesis, Inc | Method for identifying compounds in a chemical mixture |
US6391649B1 (en) * | 1999-05-04 | 2002-05-21 | The Rockefeller University | Method for the comparative quantitative analysis of proteins and other biological material by isotopic labeling and mass spectroscopy |
US6969757B2 (en) * | 2001-01-26 | 2005-11-29 | Syngenta Participations Ag | Differential labeling for quantitative analysis of complex protein mixtures |
US6829539B2 (en) * | 2001-04-13 | 2004-12-07 | The Institute For Systems Biology | Methods for quantification and de novo polypeptide sequencing by mass spectrometry |
-
2002
- 2002-07-12 US US10/195,774 patent/US20030068825A1/en not_active Abandoned
- 2002-07-12 EP EP02759149A patent/EP1428019A4/en not_active Withdrawn
- 2002-07-12 CA CA002453725A patent/CA2453725A1/en not_active Abandoned
- 2002-07-12 WO PCT/US2002/022320 patent/WO2003006951A2/en active IP Right Grant
-
2005
- 2005-08-29 US US11/214,274 patent/US20060004525A1/en not_active Abandoned
Non-Patent Citations (6)
Title |
---|
CONRADS T.P. ET AL.: "Quantitative analysis of bacterial and mammalian proteomics using a combination of cysteine affinity tags and 15N-metabolic labeling", ANAL. CHEM., 1 May 2001 (2001-05-01), pages 2132 - 2139, XP002959182 * |
GRIFFIN ET AL.: "Quantitative proteomic analysis using a MALDI quadrupole time-of-flight mass spectrometer", ANAL. CHEM., vol. 73, March 2001 (2001-03-01), pages 978 - 986, XP001059541 * |
GYGI ET AL.: "Quantitative analysis of complex protein mixtures using isotope-coded affinity tags", NAT. BIOTECH., vol. 7, October 1999 (1999-10-01), pages 994 - 999, XP002947934 * |
HAN ET AL.: "Quantitative profiling of differentiation-induced microsomal proteins using isotope-coded affinity tags and mass spectrometry", NAT. BIOTECH., vol. 19, October 2001 (2001-10-01), pages 946 - 951, XP002959184 * |
ODA Y. ET AL.: "Accurate quantitation of protein expression and site-specific phosphorylation", PROC. NATL. ACAD. SCI. USA, vol. 96, June 1999 (1999-06-01), pages 6591 - 6596, XP001080471 * |
YAO X. ET AL.: "Proteolytic 180 labeling for comparative proteomics: model studies with two serotypes of adenovirus", ANAL. CHEM., vol. 73, 1 July 2001 (2001-07-01), pages 2836 - 2842, XP002959183 * |
Also Published As
Publication number | Publication date |
---|---|
EP1428019A4 (en) | 2006-04-26 |
WO2003006951A9 (en) | 2004-05-13 |
US20060004525A1 (en) | 2006-01-05 |
WO2003006951A2 (en) | 2003-01-23 |
US20030068825A1 (en) | 2003-04-10 |
CA2453725A1 (en) | 2003-01-23 |
EP1428019A2 (en) | 2004-06-16 |
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