WO2005048012A3 - Methods for haplotype assignment - Google Patents

Methods for haplotype assignment Download PDF

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Publication number
WO2005048012A3
WO2005048012A3 PCT/US2004/019023 US2004019023W WO2005048012A3 WO 2005048012 A3 WO2005048012 A3 WO 2005048012A3 US 2004019023 W US2004019023 W US 2004019023W WO 2005048012 A3 WO2005048012 A3 WO 2005048012A3
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WO
WIPO (PCT)
Prior art keywords
methods
databases
individual
programs
haplotypes
Prior art date
Application number
PCT/US2004/019023
Other languages
French (fr)
Other versions
WO2005048012A2 (en
Inventor
Benjamin A Salisbury
J Claiborne Stephens
Andreas K Windemuth
Original Assignee
Genaissance Pharmaceuticals
Benjamin A Salisbury
J Claiborne Stephens
Andreas K Windemuth
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 Genaissance Pharmaceuticals, Benjamin A Salisbury, J Claiborne Stephens, Andreas K Windemuth filed Critical Genaissance Pharmaceuticals
Publication of WO2005048012A2 publication Critical patent/WO2005048012A2/en
Publication of WO2005048012A3 publication Critical patent/WO2005048012A3/en

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    • 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
    • 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
    • G16B20/20—Allele or variant detection, e.g. single nucleotide polymorphism [SNP] detection
    • 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
    • G16B40/00—ICT specially adapted for biostatistics; ICT specially adapted for bioinformatics-related machine learning or data mining, e.g. knowledge discovery or pattern finding
    • 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
    • G16B20/10—Ploidy or copy number detection
    • 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
    • G16B20/40—Population genetics; Linkage disequilibrium

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  • Physics & Mathematics (AREA)
  • Health & Medical Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Medical Informatics (AREA)
  • Biotechnology (AREA)
  • Biophysics (AREA)
  • Evolutionary Biology (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • General Health & Medical Sciences (AREA)
  • Theoretical Computer Science (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Chemical & Material Sciences (AREA)
  • Analytical Chemistry (AREA)
  • Genetics & Genomics (AREA)
  • Molecular Biology (AREA)
  • Computer Vision & Pattern Recognition (AREA)
  • Software Systems (AREA)
  • Public Health (AREA)
  • Evolutionary Computation (AREA)
  • Epidemiology (AREA)
  • Databases & Information Systems (AREA)
  • Data Mining & Analysis (AREA)
  • Bioethics (AREA)
  • Artificial Intelligence (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Management, Administration, Business Operations System, And Electronic Commerce (AREA)

Abstract

Methods, computer programs and databases for determining haplotypes from a collection of polymorphisms are provided. These include methods, programs, and databases to find and estimate the frequency of haplotypes in the general population as well as in subpopulations; and methods, programs, and databases for assigning at least one haplotype set to an individual based on the individual's genotype for a gene and, when necessary the individual's subpopulation.
PCT/US2004/019023 2003-08-05 2004-06-14 Methods for haplotype assignment WO2005048012A2 (en)

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US49301203P 2003-08-05 2003-08-05
US60/493,012 2003-08-05

Publications (2)

Publication Number Publication Date
WO2005048012A2 WO2005048012A2 (en) 2005-05-26
WO2005048012A3 true WO2005048012A3 (en) 2006-05-18

Family

ID=34590078

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/US2004/019023 WO2005048012A2 (en) 2003-08-05 2004-06-14 Methods for haplotype assignment

Country Status (1)

Country Link
WO (1) WO2005048012A2 (en)

Citations (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO1999054500A2 (en) * 1998-04-21 1999-10-28 Genset Biallelic markers for use in constructing a high density disequilibrium map of the human genome

Patent Citations (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO1999054500A2 (en) * 1998-04-21 1999-10-28 Genset Biallelic markers for use in constructing a high density disequilibrium map of the human genome

Non-Patent Citations (4)

* Cited by examiner, † Cited by third party
Title
KAUFMAN ET AL., BONE MARROW TRANSPLANTATION, vol. 17, 1996, pages 1013 - 1020 *
NICHOLS ET AL., J. CLIN. INVEST., vol. 99, no. 4, 1997, pages 596 - 601 *
REDLINE S.: "HLA polymorphism in Italian bone donors: a region analysis", TISSUE ANTIGENES, vol. 52, 1998, pages 135 - 146 *
SUAREZ ET AL., TISSUE ANTIGENES, vol. 20, 1982, pages 193 - 197 *

Also Published As

Publication number Publication date
WO2005048012A2 (en) 2005-05-26

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