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WO2004044700A3 - Methods, compositions and computer software products for interrogating sequence variations in functional genomic regions - Google Patents

Methods, compositions and computer software products for interrogating sequence variations in functional genomic regions Download PDF

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Publication number
WO2004044700A3
WO2004044700A3 PCT/US2003/035819 US0335819W WO2004044700A3 WO 2004044700 A3 WO2004044700 A3 WO 2004044700A3 US 0335819 W US0335819 W US 0335819W WO 2004044700 A3 WO2004044700 A3 WO 2004044700A3
Authority
WO
WIPO (PCT)
Prior art keywords
compositions
methods
computer software
software products
genomic regions
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/US2003/035819
Other languages
French (fr)
Other versions
WO2004044700A2 (en
Inventor
Thomas R Gingeras
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.)
Affymetrix Inc
Original Assignee
Affymetrix Inc
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 Affymetrix Inc filed Critical Affymetrix Inc
Priority to CNA2003801030822A priority Critical patent/CN1711358A/en
Priority to AU2003291453A priority patent/AU2003291453A1/en
Priority to EP03768853A priority patent/EP1563090A4/en
Publication of WO2004044700A2 publication Critical patent/WO2004044700A2/en
Publication of WO2004044700A3 publication Critical patent/WO2004044700A3/en
Anticipated expiration legal-status Critical
Ceased legal-status Critical Current

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Classifications

    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING 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
    • C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6876—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
    • 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
    • G16B30/00—ICT specially adapted for sequence analysis involving nucleotides or amino acids

Landscapes

  • Life Sciences & Earth Sciences (AREA)
  • Chemical & Material Sciences (AREA)
  • Physics & Mathematics (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Engineering & Computer Science (AREA)
  • Analytical Chemistry (AREA)
  • Health & Medical Sciences (AREA)
  • General Health & Medical Sciences (AREA)
  • Biophysics (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Biotechnology (AREA)
  • Organic Chemistry (AREA)
  • Wood Science & Technology (AREA)
  • Evolutionary Biology (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • Theoretical Computer Science (AREA)
  • Medical Informatics (AREA)
  • Zoology (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Immunology (AREA)
  • Molecular Biology (AREA)
  • Microbiology (AREA)
  • Biochemistry (AREA)
  • General Engineering & Computer Science (AREA)
  • Genetics & Genomics (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)

Abstract

In one aspect of the invention, methods, compositions and computer software products are provided to detect genetic variations in functional regions of a genome. In some embodiments, oligonucleotide tiling probe arrays are used to detect transcribed regions, transcription factor binding regions, etc. Genetic variations in these regions can determined with, e.g., a whole genome sampling assay.
PCT/US2003/035819 2002-11-12 2003-11-12 Methods, compositions and computer software products for interrogating sequence variations in functional genomic regions Ceased WO2004044700A2 (en)

Priority Applications (3)

Application Number Priority Date Filing Date Title
CNA2003801030822A CN1711358A (en) 2002-11-12 2003-11-12 Methods, compositions and computer software products for interrogating sequence variations in functional genomic regions
AU2003291453A AU2003291453A1 (en) 2002-11-12 2003-11-12 Methods, compositions and computer software products for interrogating sequence variations in functional genomic regions
EP03768853A EP1563090A4 (en) 2002-11-12 2003-11-12 Methods, compositions and computer software products for interrogating sequence variations in functional genomic regions

Applications Claiming Priority (4)

Application Number Priority Date Filing Date Title
US42588002P 2002-11-12 2002-11-12
US42587902P 2002-11-12 2002-11-12
US60/425,880 2002-11-12
US60/425,879 2002-11-12

Publications (2)

Publication Number Publication Date
WO2004044700A2 WO2004044700A2 (en) 2004-05-27
WO2004044700A3 true WO2004044700A3 (en) 2005-05-06

Family

ID=32314612

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/US2003/035819 Ceased WO2004044700A2 (en) 2002-11-12 2003-11-12 Methods, compositions and computer software products for interrogating sequence variations in functional genomic regions

Country Status (4)

Country Link
EP (1) EP1563090A4 (en)
CN (1) CN1711358A (en)
AU (1) AU2003291453A1 (en)
WO (1) WO2004044700A2 (en)

Families Citing this family (2)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
JP2015035212A (en) * 2013-07-29 2015-02-19 アジレント・テクノロジーズ・インクＡｇｉｌｅｎｔ Ｔｅｃｈｎｏｌｏｇｉｅｓ， Ｉｎｃ． How to find mutations from the target sequencing panel
CN107808073B (en) * 2017-10-31 2018-11-13 广东美格基因科技有限公司 High-flux microorganism functional gene microarray processing method and electronic equipment

Citations (4)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US5972608A (en) * 1997-08-27 1999-10-26 University Of Massachusetts Assays and reagents for chromatin remodeling enzymes and their modulators
US6306643B1 (en) * 1998-08-24 2001-10-23 Affymetrix, Inc. Methods of using an array of pooled probes in genetic analysis
US6322985B1 (en) * 1999-12-27 2001-11-27 Technion Research And Development Foundation Ltd. Abundant, well distributed and hyperpolymorphic simple sequence repeats in prokaryote genomes and use of same for prokaryote classification and typing
US6468742B2 (en) * 1993-11-01 2002-10-22 Nanogen, Inc. Methods for determination of single nucleic acid polymorphisms using bioelectronic microchip

Family Cites Families (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20030186280A1 (en) * 2002-03-28 2003-10-02 Affymetrix, Inc. Methods for detecting genomic regions of biological significance

Patent Citations (4)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US6468742B2 (en) * 1993-11-01 2002-10-22 Nanogen, Inc. Methods for determination of single nucleic acid polymorphisms using bioelectronic microchip
US5972608A (en) * 1997-08-27 1999-10-26 University Of Massachusetts Assays and reagents for chromatin remodeling enzymes and their modulators
US6306643B1 (en) * 1998-08-24 2001-10-23 Affymetrix, Inc. Methods of using an array of pooled probes in genetic analysis
US6322985B1 (en) * 1999-12-27 2001-11-27 Technion Research And Development Foundation Ltd. Abundant, well distributed and hyperpolymorphic simple sequence repeats in prokaryote genomes and use of same for prokaryote classification and typing

Also Published As

Publication number Publication date
WO2004044700A2 (en) 2004-05-27
AU2003291453A8 (en) 2004-06-03
EP1563090A2 (en) 2005-08-17
EP1563090A4 (en) 2007-07-11
AU2003291453A1 (en) 2004-06-03
CN1711358A (en) 2005-12-21

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