WO2001059460A3 - Mapping of differential display of proteins - Google Patents

Mapping of differential display of proteins Download PDF

Info

Publication number
WO2001059460A3
WO2001059460A3 PCT/US2001/003887 US0103887W WO0159460A3 WO 2001059460 A3 WO2001059460 A3 WO 2001059460A3 US 0103887 W US0103887 W US 0103887W WO 0159460 A3 WO0159460 A3 WO 0159460A3
Authority
WO
WIPO (PCT)
Prior art keywords
proteins
present
mapping
cancerous
methods
Prior art date
Application number
PCT/US2001/003887
Other languages
French (fr)
Other versions
WO2001059460A2 (en
Inventor
David M Lubman
Bathsheba E Chong
Stephen J Parus
Original Assignee
Univ Michigan
David M Lubman
Bathsheba E Chong
Stephen J Parus
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 Univ Michigan, David M Lubman, Bathsheba E Chong, Stephen J Parus filed Critical Univ Michigan
Priority to MXPA02007665A priority Critical patent/MXPA02007665A/en
Priority to EP01907054A priority patent/EP1256001A2/en
Priority to JP2001558739A priority patent/JP2003534533A/en
Priority to AU2001234880A priority patent/AU2001234880A1/en
Priority to CA002400460A priority patent/CA2400460C/en
Publication of WO2001059460A2 publication Critical patent/WO2001059460A2/en
Publication of WO2001059460A3 publication Critical patent/WO2001059460A3/en

Links

Classifications

    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K1/00—General methods for the preparation of peptides, i.e. processes for the organic chemical preparation of peptides or proteins of any length
    • C07K1/14—Extraction; Separation; Purification
    • C07K1/36—Extraction; Separation; Purification by a combination of two or more processes of different types
    • 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
    • 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
    • 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
    • G01N30/50—Conditioning of the sorbent material or stationary liquid
    • G01N30/52—Physical parameters
    • G01N2030/524—Physical parameters structural properties
    • 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
    • G01N30/88—Integrated analysis systems specially adapted therefor, not covered by a single one of the groups G01N30/04 - G01N30/86
    • G01N2030/8809—Integrated analysis systems specially adapted therefor, not covered by a single one of the groups G01N30/04 - G01N30/86 analysis specially adapted for the sample
    • G01N2030/8813—Integrated analysis systems specially adapted therefor, not covered by a single one of the groups G01N30/04 - G01N30/86 analysis specially adapted for the sample biological materials
    • 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
    • G01N30/88—Integrated analysis systems specially adapted therefor, not covered by a single one of the groups G01N30/04 - G01N30/86
    • G01N2030/8809—Integrated analysis systems specially adapted therefor, not covered by a single one of the groups G01N30/04 - G01N30/86 analysis specially adapted for the sample
    • G01N2030/8813—Integrated analysis systems specially adapted therefor, not covered by a single one of the groups G01N30/04 - G01N30/86 analysis specially adapted for the sample biological materials
    • G01N2030/8831—Integrated analysis systems specially adapted therefor, not covered by a single one of the groups G01N30/04 - G01N30/86 analysis specially adapted for the sample biological materials involving peptides or proteins
    • 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
    • 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
    • G01N30/26—Conditioning of the fluid carrier; Flow patterns
    • G01N30/38—Flow patterns
    • G01N30/46—Flow patterns using more than one column
    • G01N30/461—Flow patterns using more than one column with serial coupling of separation columns
    • 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
    • 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
    • G01N30/80—Fraction collectors
    • G01N30/82—Automatic means therefor
    • 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
    • G01N30/86—Signal analysis
    • G01N30/8651—Recording, data aquisition, archiving and storage

Landscapes

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

Abstract

The present invention relates to protein separation systems and methods capable of resolving and characterizing large numbers of cellular proteins. In particular, the present invention provides a novel mass mapping system and methods for the differential display of proteins. The present invention further provides novel methods for displaying differential protein expression between two samples. In particular, the present invention provides novel method of mapping differential expression of proteins in non-cancerous, pre-cancerous, and cancerous cells.
PCT/US2001/003887 2000-02-08 2001-02-07 Mapping of differential display of proteins WO2001059460A2 (en)

Priority Applications (5)

Application Number Priority Date Filing Date Title
MXPA02007665A MXPA02007665A (en) 2000-02-08 2001-02-07 Mapping of differential display of proteins.
EP01907054A EP1256001A2 (en) 2000-02-08 2001-02-07 Mapping of differential display of proteins
JP2001558739A JP2003534533A (en) 2000-02-08 2001-02-07 Differential display mapping of proteins
AU2001234880A AU2001234880A1 (en) 2000-02-08 2001-02-07 Mapping of differential display of proteins
CA002400460A CA2400460C (en) 2000-02-08 2001-02-07 Mapping of differential display of proteins

Applications Claiming Priority (10)

Application Number Priority Date Filing Date Title
US18091100P 2000-02-08 2000-02-08
US60/180,911 2000-02-08
US23932600P 2000-10-10 2000-10-10
US23932500P 2000-10-10 2000-10-10
US60/239,326 2000-10-10
US60/239,325 2000-10-10
US25944801P 2001-01-03 2001-01-03
US60/259,448 2001-01-03
US25981601P 2001-01-04 2001-01-04
US60/259,816 2001-01-04

Publications (2)

Publication Number Publication Date
WO2001059460A2 WO2001059460A2 (en) 2001-08-16
WO2001059460A3 true WO2001059460A3 (en) 2002-02-07

Family

ID=27539042

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/US2001/003887 WO2001059460A2 (en) 2000-02-08 2001-02-07 Mapping of differential display of proteins

Country Status (7)

Country Link
US (1) US7069151B2 (en)
EP (1) EP1256001A2 (en)
JP (1) JP2003534533A (en)
AU (1) AU2001234880A1 (en)
CA (1) CA2400460C (en)
MX (1) MXPA02007665A (en)
WO (1) WO2001059460A2 (en)

Families Citing this family (21)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20050230315A1 (en) * 2003-01-13 2005-10-20 Regents Of The University Of Michigan Protein microarray system
CA2401663C (en) * 2000-02-08 2008-11-25 The Regents Of The University Of Michigan Protein mapping
US20080096284A1 (en) * 2000-02-08 2008-04-24 Regents Of The University Of Michigan Protein separation and analysis
US20030064527A1 (en) * 2001-02-07 2003-04-03 The Regents Of The University Of Michigan Proteomic differential display
US6931325B2 (en) 2001-02-07 2005-08-16 Regents Of The University Of Michigan Three dimensional protein mapping
US20030139885A1 (en) * 2001-11-05 2003-07-24 Irm, Llc Methods and devices for proteomics data complexity reduction
AU2003286782A1 (en) * 2002-10-30 2004-06-07 Varian, Inc. Use of temperature and flow profiles in gradient elution based analytical process
EP1587840B1 (en) * 2003-01-13 2008-08-20 The Regents Of The University Of Michigan Method to form a protein microarray system
US20050009114A1 (en) * 2003-05-15 2005-01-13 Board Of Regents, The University Of Texas System Identification and quantification of organ-specific proteins derived from human allogeneic cells using proteomics
US20040236603A1 (en) * 2003-05-22 2004-11-25 Biospect, Inc. System of analyzing complex mixtures of biological and other fluids to identify biological state information
US7425700B2 (en) 2003-05-22 2008-09-16 Stults John T Systems and methods for discovery and analysis of markers
GB0322356D0 (en) * 2003-09-24 2003-10-22 Micromass Ltd Mass spectrometer
US20050244973A1 (en) * 2004-04-29 2005-11-03 Predicant Biosciences, Inc. Biological patterns for diagnosis and treatment of cancer
EP1967529A1 (en) 2004-07-20 2008-09-10 Symphogen A/S Anti-rhesus D recombinant polyclonal antibody and methods of manufacture
ATE548657T1 (en) 2004-07-20 2012-03-15 Symphogen As PROCEDURE FOR THE STRUCTURAL CHARACTERIZATION OF RECOMBINANT POLYCLONAL PROTEINS OR A POLYCLONAL CELL LINE
US20060214104A1 (en) * 2004-10-26 2006-09-28 Invitrogen Corporation Compositions and methods for analyzing biomolecules using mass spectroscopy
AU2006259153B2 (en) * 2005-06-14 2012-04-12 Cellzome Gmbh Process for the identification of novel enzyme interacting compounds
WO2007112082A2 (en) * 2006-03-24 2007-10-04 The Regent Of The University Of Michigan Methods and compositions for the identification of cancer markers
US20110171619A1 (en) * 2009-05-28 2011-07-14 Daniel Leo Sweeney Representation of molecules as sets of masses of complementary subgroups and contiguous complementary subgroups
SG10202109446VA (en) 2018-01-31 2021-10-28 Regeneron Pharma A dual-column lc-ms system and methods of use thereof
IL303893A (en) 2019-08-05 2023-08-01 Seer Inc Systems and methods for sample preparation, data generation, and protein corona analysis

Citations (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO1998040395A1 (en) * 1997-03-14 1998-09-17 Transgenomic, Inc. Band array display of polynucleotide separations

Family Cites Families (11)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
EP0617048A1 (en) 1993-03-26 1994-09-28 Waters Investments Limited Method of capillary isoelectric focusing of proteins and peptides with fraction collection for post-run analysis
US5498545A (en) 1994-07-21 1996-03-12 Vestal; Marvin L. Mass spectrometer system and method for matrix-assisted laser desorption measurements
WO1997001755A2 (en) 1995-06-26 1997-01-16 Perseptive Biosystems, Inc. High speed, automated, continuous flow, multi-dimensional molecular selection and analysis
US5670054A (en) 1996-04-04 1997-09-23 Warner Lambert Company Method and system for identification, purification, and quantitation of reaction components
NZ516848A (en) * 1997-06-20 2004-03-26 Ciphergen Biosystems Inc Retentate chromatography apparatus with applications in biology and medicine
CA2359649A1 (en) * 1999-02-16 2000-08-24 Lance A. Liotta Lcm (laser capture microdissection) for cellular protein analysis
JP2003525515A (en) * 1999-06-11 2003-08-26 パーセプティブ バイオシステムズ，インコーポレイテッド Tandem time-of-flight mass spectrometer with attenuation in a collision cell and method for its use
MXPA02007664A (en) 2000-02-08 2004-08-23 Univ Michigan Protein separation and display.
CA2401663C (en) 2000-02-08 2008-11-25 The Regents Of The University Of Michigan Protein mapping
CA2301451A1 (en) * 2000-03-20 2001-09-21 Thang T. Pham Method for analysis of analytes by mass spectrometry
CA2446337A1 (en) 2001-05-02 2002-11-07 Regents Of The University Of Michigan Differential display protein maps

Patent Citations (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO1998040395A1 (en) * 1997-03-14 1998-09-17 Transgenomic, Inc. Band array display of polynucleotide separations

Non-Patent Citations (4)

* Cited by examiner, † Cited by third party
Title
BINZ P A ET AL: "MOLECULAR SCANNER TO AUTOMATE PROTEOMIC RESEARCH AND TO DISPLAY PROTEOME IMAGES", ANALYTICAL CHEMISTRY, AMERICAN CHEMICAL SOCIETY. COLUMBUS, US, vol. 71, no. 21, 1 November 1999 (1999-11-01), pages 4981 - 4988, XP002923560, ISSN: 0003-2700 *
CHONG B E ET AL: "RAPID SCREENING OF PROTEIN PROFILES OF HUMAN BREAST CANCER CELL LINES USING NON-POROUS REVERSED-PHASE HIGH PERFORMANCE LIQUID CHROMATOGRAPHY SEPARATION WITH MATRIX-ASSISTED LASER DESORPTION/IONIZATION TIME-OF-FLIGHT MASS SPECTRAL ANALYSIS", RAPID COMMUNICATIONS IN MASS SPECTROMETRY, LONDON, GB, vol. 13, no. 18, 1999, pages 1808 - 1812, XP001006015 *
See also references of EP1256001A2 *
WILKINS M R ET AL: "FROM PROTEINS TO PROTEOMES: LARGE SCALE PROTEIN IDENTIFICATION BY TWO-DIMENSIONAL ELECTROPHORESIS AND AMINO ACID ANALYSIS", NATURE BIOTECHNOLOGY, NATURE PUBLISHING, US, vol. 14, January 1996 (1996-01-01), pages 61 - 65, XP002923558, ISSN: 1087-0156 *

Also Published As

Publication number Publication date
US7069151B2 (en) 2006-06-27
EP1256001A2 (en) 2002-11-13
US20020039747A1 (en) 2002-04-04
AU2001234880A1 (en) 2001-08-20
WO2001059460A2 (en) 2001-08-16
CA2400460C (en) 2009-01-06
CA2400460A1 (en) 2001-08-16
MXPA02007665A (en) 2004-08-23
JP2003534533A (en) 2003-11-18

Similar Documents

Publication Publication Date Title
WO2001059460A3 (en) Mapping of differential display of proteins
Cordwell Technologies for bacterial surface proteomics
MXPA02007664A (en) Protein separation and display.
AU2003224674A1 (en) Compounds and methods for analyzing the proteome
WO2001075087A8 (en) Subtilisin variants
AU2001241405A1 (en) Nucleic acids, proteins, and antibodies
BR0009206A (en) Protein isolation and analysis
WO2004024750A3 (en) Cd44-binding ligands
WO2006023635A3 (en) Methods of screening proteins
WO2002048716A3 (en) Differential phage capture proteomics
WO2005113838A3 (en) Detection of protein translocation by beta-galactosidase reporter fragment complementation
WO2001058926A3 (en) Protein mapping
WO2002042422A3 (en) Molecular interactions in hematopoietic cells
WO2004033718A3 (en) Trap-tagging: a novel method for the identification and purification of rna-protein complexes
AU2001279639A1 (en) Method for electrophoretically separating membrane proteins
AU2001238212A1 (en) Modified fluorescent proteins
WO2002059144A8 (en) Differential labeling for quantitative analysis of complex protein mixtures
AU2002214542A1 (en) Isolated human protease proteins, nucleic acid molecules encoding human protease proteins, and uses thereof
AU2001256585A1 (en) Method for constructing, representing or displaying protein interaction maps
WO2005051985A3 (en) Methods for purifying pertussis toxin and peptides useful therefor
AU2002321899A1 (en) Detection of differential expression of protein using gel-free proteomics
AU2001288363A1 (en) Isolated human protease proteins, nucleic acid molecules encoding human protease proteins, and uses thereof
WO2004001377A3 (en) Improved methods for performing differential capture proteomics
WO2004094989A3 (en) Methods of host cell protein analysis
WO2001094573A3 (en) Processing of plasmid-containing fluids

Legal Events

Date Code Title Description
AK Designated states

Kind code of ref document: A2

Designated state(s): AE AG AL AM AT AU AZ BA BB BG BR BY BZ CA CH CN CR CU CZ DE DK DM DZ EE ES FI GB GD GE GH GM HR HU ID IL IN IS JP KE KG KP KR KZ LC LK LR LS LT LU LV MA MD MG MK MN MW MX MZ NO NZ PL PT RO RU SD SE SG SI SK SL TJ TM TR TT TZ UA UG US UZ VN YU ZA ZW

AL Designated countries for regional patents

Kind code of ref document: A2

Designated state(s): GH GM KE LS MW MZ SD SL SZ TZ UG ZW AM AZ BY KG KZ MD RU TJ TM AT BE CH CY DE DK ES FI FR GB GR IE IT LU MC NL PT SE TR BF BJ CF CG CI CM GA GN GW ML MR NE SN TD TG

121 Ep: the epo has been informed by wipo that ep was designated in this application
DFPE Request for preliminary examination filed prior to expiration of 19th month from priority date (pct application filed before 20040101)
AK Designated states

Kind code of ref document: A3

Designated state(s): AE AG AL AM AT AU AZ BA BB BG BR BY BZ CA CH CN CR CU CZ DE DK DM DZ EE ES FI GB GD GE GH GM HR HU ID IL IN IS JP KE KG KP KR KZ LC LK LR LS LT LU LV MA MD MG MK MN MW MX MZ NO NZ PL PT RO RU SD SE SG SI SK SL TJ TM TR TT TZ UA UG US UZ VN YU ZA ZW

AL Designated countries for regional patents

Kind code of ref document: A3

Designated state(s): GH GM KE LS MW MZ SD SL SZ TZ UG ZW AM AZ BY KG KZ MD RU TJ TM AT BE CH CY DE DK ES FI FR GB GR IE IT LU MC NL PT SE TR BF BJ CF CG CI CM GA GN GW ML MR NE SN TD TG

WWE Wipo information: entry into national phase

Ref document number: 2400460

Country of ref document: CA

ENP Entry into the national phase

Ref country code: JP

Ref document number: 2001 558739

Kind code of ref document: A

Format of ref document f/p: F

WWE Wipo information: entry into national phase

Ref document number: PA/a/2002/007665

Country of ref document: MX

WWE Wipo information: entry into national phase

Ref document number: 2001907054

Country of ref document: EP

WWP Wipo information: published in national office

Ref document number: 2001907054

Country of ref document: EP

REG Reference to national code

Ref country code: DE

Ref legal event code: 8642