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WO2004005547A3 - Procede - Google Patents

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Publication number
WO2004005547A3
WO2004005547A3 PCT/GB2003/002895 GB0302895W WO2004005547A3 WO 2004005547 A3 WO2004005547 A3 WO 2004005547A3 GB 0302895 W GB0302895 W GB 0302895W WO 2004005547 A3 WO2004005547 A3 WO 2004005547A3
Authority
WO
WIPO (PCT)
Prior art keywords
identifying
consensus sequences
hypersensitive site
site consensus
sequences
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/GB2003/002895
Other languages
English (en)
Other versions
WO2004005547A2 (fr
Inventor
Robert Otto Johannes Weinzierl
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.)
Ip2ipo Innovations Ltd
Original Assignee
Imperial College Innovations 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
Priority claimed from GB0215547A external-priority patent/GB0215547D0/en
Priority claimed from PCT/GB2002/003080 external-priority patent/WO2003004702A2/fr
Application filed by Imperial College Innovations Ltd filed Critical Imperial College Innovations Ltd
Priority to AU2003281288A priority Critical patent/AU2003281288A1/en
Publication of WO2004005547A2 publication Critical patent/WO2004005547A2/fr
Publication of WO2004005547A3 publication Critical patent/WO2004005547A3/fr
Anticipated expiration legal-status Critical
Ceased legal-status Critical Current

Links

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
    • C12Q1/6813—Hybridisation assays
    • C12Q1/6827—Hybridisation assays for detection of mutation or polymorphism
    • A—HUMAN NECESSITIES
    • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61P—SPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
    • A61P43/00—Drugs for specific purposes, not provided for in groups A61P1/00-A61P41/00
    • 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)
  • Health & Medical Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Physics & Mathematics (AREA)
  • Organic Chemistry (AREA)
  • General Health & Medical Sciences (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Biotechnology (AREA)
  • Biophysics (AREA)
  • Analytical Chemistry (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Wood Science & Technology (AREA)
  • Zoology (AREA)
  • Theoretical Computer Science (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • Medical Informatics (AREA)
  • Evolutionary Biology (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • Public Health (AREA)
  • General Chemical & Material Sciences (AREA)
  • Pharmacology & Pharmacy (AREA)
  • Medicinal Chemistry (AREA)
  • Genetics & Genomics (AREA)
  • Animal Behavior & Ethology (AREA)
  • Nuclear Medicine, Radiotherapy & Molecular Imaging (AREA)
  • Veterinary Medicine (AREA)
  • Microbiology (AREA)
  • Molecular Biology (AREA)
  • General Engineering & Computer Science (AREA)
  • Immunology (AREA)
  • Biochemistry (AREA)
  • Traffic Control Systems (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)

Abstract

La présente invention concerne un procédé pour identifier une ou plusieurs séquences consensus de site hypersensible (hypersensitive site : HS). Ce procédé consiste (a) à disposer d'une pluralité de séquences de noyau d'HS, (b) à utiliser un algorithme de recherche afin de rechercher une pluralité de motifs qui sont partagés par des séquences de noyau d'HS, puis à retourner une ou plusieurs séquences consensus d'HS comprenant une pluralité de motifs identifiés dans l'étape (b).
PCT/GB2003/002895 2002-07-04 2003-07-04 Procede Ceased WO2004005547A2 (fr)

Priority Applications (1)

Application Number Priority Date Filing Date Title
AU2003281288A AU2003281288A1 (en) 2002-07-04 2003-07-04 Method for identifying hypersensitive site consensus sequences

Applications Claiming Priority (4)

Application Number Priority Date Filing Date Title
GBPCT/GB02/003080 2002-07-04
GB0215547A GB0215547D0 (en) 2002-07-04 2002-07-04 Method
GB0215547.1 2002-07-04
PCT/GB2002/003080 WO2003004702A2 (fr) 2001-07-05 2002-07-04 Methode

Publications (2)

Publication Number Publication Date
WO2004005547A2 WO2004005547A2 (fr) 2004-01-15
WO2004005547A3 true WO2004005547A3 (fr) 2004-03-25

Family

ID=30117081

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/GB2003/002895 Ceased WO2004005547A2 (fr) 2002-07-04 2003-07-04 Procede

Country Status (2)

Country Link
AU (1) AU2003281288A1 (fr)
WO (1) WO2004005547A2 (fr)

Families Citing this family (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
ES2687645T3 (es) * 2003-10-27 2018-10-26 Merck Sharp & Dohme Corp. Método de diseño de ARNip para el silenciamiento de genes

Citations (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2003004702A2 (fr) * 2001-07-05 2003-01-16 Imperial College Innovations Limited Methode

Patent Citations (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2003004702A2 (fr) * 2001-07-05 2003-01-16 Imperial College Innovations Limited Methode

Non-Patent Citations (11)

* Cited by examiner, † Cited by third party
Title
FRECH K ET AL: "Finding protein-binding sites in DNA sequences: the next generation", TIBS TRENDS IN BIOCHEMICAL SCIENCES, ELSEVIER PUBLICATION, CAMBRIDGE, EN, vol. 22, no. 3, 1 March 1997 (1997-03-01), pages 103 - 104, XP004055069, ISSN: 0968-0004 *
FRISCH MATTHIAS ET AL: "In silico prediction of scaffold/matrix attachment regions in large genomic sequences", GENOME RESEARCH, vol. 12, no. 2, February 2002 (2002-02-01), pages 349 - 354, XP002257587, ISSN: 1088-9051 *
FRITH MARTIN C ET AL: "Detection of cis-element clusters in higher eukaryotic DNA", BIOINFORMATICS (OXFORD), vol. 17, no. 10, October 2001 (2001-10-01), pages 878 - 889, XP002257591, ISSN: 1367-4803 *
FRITH MARTIN C ET AL: "Statistical significance of clusters of motifs represented by position specific scoring matrices in nucleotide sequences", NUCLEIC ACIDS RESEARCH, vol. 30, no. 14, 15 July 2002 (2002-07-15), pages 3214 - 3224, XP002257592, ISSN: 0305-1048 *
GROSS D S ET AL: "NUCLEASE HYPERSENSITIVE SITES IN CHROMATIN", ANNUAL REVIEW OF BIOCHEMISTRY, PALTO ALTO, CA, US, vol. 57, 1988, pages 159 - 197, XP000879087, ISSN: 0066-4154 *
PFEIFER G P ET AL: "CHROMATIN STRUCTURE ANALYSIS BY LIGATION-MEDIATED AND TERMINAL TRANSFERASE-MEDIATED POLYMERASE CHAIN REACTION", METHODS IN ENZYMOLOGY, ACADEMIC PRESS INC, SAN DIEGO, CA, US, vol. 304, 1999, pages 548 - 571, XP001147579, ISSN: 0076-6879 *
SCHOLZ HOLGER ET AL: "A far upstream cis-element is required for Wilms' tumor-1 (WT1) gene expression in renal cell culture", JOURNAL OF BIOLOGICAL CHEMISTRY, vol. 272, no. 52, 26 December 1997 (1997-12-26), pages 32836 - 32846, XP002257540, ISSN: 0021-9258 *
SMITH C L ET AL: "STRATEGIES FOR MAPPING AND CLONING MACROREGIONS OF MAMMALIAN GENOMES", METHODS IN ENZYMOLOGY, ACADEMIC PRESS INC, SAN DIEGO, CA, US, vol. 151, 1987, pages 461 - 489, XP001147570, ISSN: 0076-6879 *
THIJS GERT ET AL: "A higher-order background model improves the detection of promoter regulatory elements by Gibbs sampling", BIOINFORMATICS (OXFORD), vol. 17, no. 12, December 2001 (2001-12-01), pages 1113 - 1122, XP002257589, ISSN: 1367-4803 *
WU THOMAS D ET AL: "Fast probabilistic analysis of sequence function using scoring matrices", BIOINFORMATICS (OXFORD), vol. 16, no. 3, March 2000 (2000-03-01), pages 233 - 244, XP002257590, ISSN: 1367-4803 *
YADA TETSUSHI ET AL: "Automatic extraction of motifs represented in the hidden Markov model from a number of DNA sequences", BIOINFORMATICS (OXFORD), vol. 14, no. 4, 1998, pages 317 - 325, XP002257588, ISSN: 1367-4803 *

Also Published As

Publication number Publication date
AU2003281288A1 (en) 2004-01-23
WO2004005547A2 (fr) 2004-01-15
AU2003281288A8 (en) 2004-01-23

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