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EP1124992A4 - Methods for using co-regulated genesets to enhance detection and classification of gene expression patterns - Google Patents

Methods for using co-regulated genesets to enhance detection and classification of gene expression patterns

Info

Publication number
EP1124992A4
EP1124992A4 EP99971047A EP99971047A EP1124992A4 EP 1124992 A4 EP1124992 A4 EP 1124992A4 EP 99971047 A EP99971047 A EP 99971047A EP 99971047 A EP99971047 A EP 99971047A EP 1124992 A4 EP1124992 A4 EP 1124992A4
Authority
EP
European Patent Office
Prior art keywords
classification
methods
gene expression
expression patterns
enhance detection
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.)
Withdrawn
Application number
EP99971047A
Other languages
German (de)
French (fr)
Other versions
EP1124992A1 (en
Inventor
Stephen H Friend
Roland Stoughton
Yudong He
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.)
Rosetta Inpharmatics LLC
Original Assignee
Rosetta Inpharmatics LLC
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 US09/179,569 external-priority patent/US6203987B1/en
Priority claimed from US09/220,275 external-priority patent/US6950752B1/en
Application filed by Rosetta Inpharmatics LLC filed Critical Rosetta Inpharmatics LLC
Publication of EP1124992A1 publication Critical patent/EP1124992A1/en
Publication of EP1124992A4 publication Critical patent/EP1124992A4/en
Withdrawn legal-status Critical Current

Links

Classifications

    • CCHEMISTRY; METALLURGY
    • C12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12QMEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • GPHYSICS
    • G16INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16BBIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B40/00ICT specially adapted for biostatistics; ICT specially adapted for bioinformatics-related machine learning or data mining, e.g. knowledge discovery or pattern finding
    • G16B40/30Unsupervised data analysis
    • GPHYSICS
    • G01MEASURING; TESTING
    • G01NINVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N33/00Investigating or analysing materials by specific methods not covered by groups G01N1/00 - G01N31/00
    • G01N33/48Biological material, e.g. blood, urine; Haemocytometers
    • G01N33/50Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing
    • G01N33/68Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing involving proteins, peptides or amino acids
    • G01N33/6803General methods of protein analysis not limited to specific proteins or families of proteins
    • CCHEMISTRY; METALLURGY
    • C12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12QMEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6809Methods for determination or identification of nucleic acids involving differential detection
    • CCHEMISTRY; METALLURGY
    • C12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12QMEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6813Hybridisation assays
    • C12Q1/6834Enzymatic or biochemical coupling of nucleic acids to a solid phase
    • GPHYSICS
    • G16INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16BBIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B25/00ICT specially adapted for hybridisation; ICT specially adapted for gene or protein expression
    • G16B25/10Gene or protein expression profiling; Expression-ratio estimation or normalisation
    • GPHYSICS
    • G16INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16BBIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B40/00ICT specially adapted for biostatistics; ICT specially adapted for bioinformatics-related machine learning or data mining, e.g. knowledge discovery or pattern finding
    • GPHYSICS
    • G16INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16BBIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B25/00ICT specially adapted for hybridisation; ICT specially adapted for gene or protein expression

Landscapes

  • Life Sciences & Earth Sciences (AREA)
  • Health & Medical Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Physics & Mathematics (AREA)
  • Chemical & Material Sciences (AREA)
  • Biophysics (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Biotechnology (AREA)
  • Medical Informatics (AREA)
  • General Health & Medical Sciences (AREA)
  • Genetics & Genomics (AREA)
  • Molecular Biology (AREA)
  • Organic Chemistry (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Theoretical Computer Science (AREA)
  • Data Mining & Analysis (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • Evolutionary Biology (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Zoology (AREA)
  • Wood Science & Technology (AREA)
  • Analytical Chemistry (AREA)
  • Immunology (AREA)
  • Software Systems (AREA)
  • Databases & Information Systems (AREA)
  • Epidemiology (AREA)
  • Evolutionary Computation (AREA)
  • Computer Vision & Pattern Recognition (AREA)
  • Public Health (AREA)
  • Biochemistry (AREA)
  • Bioethics (AREA)
  • Artificial Intelligence (AREA)
  • Microbiology (AREA)
  • General Engineering & Computer Science (AREA)
  • Biomedical Technology (AREA)
  • Hematology (AREA)
  • Urology & Nephrology (AREA)
  • Cell Biology (AREA)
  • Food Science & Technology (AREA)
  • Medicinal Chemistry (AREA)
EP99971047A 1998-10-27 1999-10-27 Methods for using co-regulated genesets to enhance detection and classification of gene expression patterns Withdrawn EP1124992A4 (en)

Applications Claiming Priority (5)

Application Number Priority Date Filing Date Title
US179569 1994-01-07
US09/179,569 US6203987B1 (en) 1998-10-27 1998-10-27 Methods for using co-regulated genesets to enhance detection and classification of gene expression patterns
US09/220,275 US6950752B1 (en) 1998-10-27 1998-12-23 Methods for removing artifact from biological profiles
US220275 1998-12-23
PCT/US1999/025025 WO2000024936A1 (en) 1998-10-27 1999-10-27 Methods for using co-regulated genesets to enhance detection and classification of gene expression patterns

Publications (2)

Publication Number Publication Date
EP1124992A1 EP1124992A1 (en) 2001-08-22
EP1124992A4 true EP1124992A4 (en) 2006-09-06

Family

ID=26875445

Family Applications (1)

Application Number Title Priority Date Filing Date
EP99971047A Withdrawn EP1124992A4 (en) 1998-10-27 1999-10-27 Methods for using co-regulated genesets to enhance detection and classification of gene expression patterns

Country Status (11)

Country Link
EP (1) EP1124992A4 (en)
JP (1) JP2002528095A (en)
KR (1) KR20010081098A (en)
AU (1) AU773456B2 (en)
BR (1) BR9914913A (en)
CA (1) CA2348837A1 (en)
HU (1) HUP0104050A2 (en)
IL (1) IL142840A0 (en)
IS (1) IS5929A (en)
NO (1) NO20012036L (en)
PL (1) PL347495A1 (en)

Families Citing this family (8)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US9183349B2 (en) 2005-12-16 2015-11-10 Nextbio Sequence-centric scientific information management
EP1964037A4 (en) * 2005-12-16 2012-04-25 Nextbio System and method for scientific information knowledge management
WO2009111581A1 (en) 2008-03-04 2009-09-11 Nextbio Categorization and filtering of scientific data
AU2010205493A1 (en) * 2009-01-19 2011-09-08 Sistemic Scotland Limited Methods employing non-coding RNA expression assays
JP5133368B2 (en) * 2010-05-30 2013-01-30 株式会社 ワールドフュージョン Expression data prediction system
WO2015198620A1 (en) * 2014-06-23 2015-12-30 オリンパス株式会社 Tissue mapping method
CN112036754B (en) * 2020-06-30 2022-09-16 上海即科智能技术集团有限公司 Financial big data wind control system based on block chain
CN117933579B (en) * 2024-03-25 2024-06-25 中国农业科学院草原研究所 Efficient artificial grassland comprehensive management method

Non-Patent Citations (1)

* Cited by examiner, † Cited by third party
Title
No Search *

Also Published As

Publication number Publication date
KR20010081098A (en) 2001-08-27
NO20012036D0 (en) 2001-04-25
IL142840A0 (en) 2002-03-10
EP1124992A1 (en) 2001-08-22
HUP0104050A2 (en) 2002-03-28
AU1451700A (en) 2000-05-15
IS5929A (en) 2001-04-27
AU773456B2 (en) 2004-05-27
BR9914913A (en) 2001-10-16
CA2348837A1 (en) 2000-05-04
PL347495A1 (en) 2002-04-08
NO20012036L (en) 2001-06-25
JP2002528095A (en) 2002-09-03

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Legal Events

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PUAI Public reference made under article 153(3) epc to a published international application that has entered the european phase

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Effective date: 20010525

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A4 Supplementary search report drawn up and despatched

Effective date: 20060804

RAP1 Party data changed (applicant data changed or rights of an application transferred)

Owner name: ROSETTA INPHARMATICS LLC

RIC1 Information provided on ipc code assigned before grant

Ipc: C12Q 1/68 20060101ALI20060801BHEP

Ipc: G06F 19/00 20060101AFI20060801BHEP

STAA Information on the status of an ep patent application or granted ep patent

Free format text: STATUS: THE APPLICATION IS DEEMED TO BE WITHDRAWN

18D Application deemed to be withdrawn

Effective date: 20061104