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The International HapMap Project is a partnership of scientists and funding agencies from Canada, China, Japan, Nigeria, the United Kingdom and the United States to develop a public resource that will help researchers find genes associated with human disease and response to pharmaceuticals. See "About the International HapMap Project" for more information.
 
Project Information
About the Project
HapMap Publications
HapMap Tutorial
HapMap Mailing List
HapMap Project Participants
 
Project Data
HapMap Genome Browser release #28 ( Phases 1, 2 & 3 - merged genotypes & frequencies )
HapMap3 Genome Browser release #3 ( Phase 3 - genotypes & frequencies )
HapMap Genome Browser release #27 ( Phase 1, 2 & 3 - merged genotypes & frequencies )
HapMap3 Genome Browser release #2 ( Phase 3 - genotypes, frequencies & LD )
HapMap Genome Browser release#24 ( Phase 1 & 2 - full dataset )
GWAs Karyogram
HapMart
HapMap FTP
Bulk Data Download
Data Freezes for Publication
ENCODE Project
Guidelines For Data Use
 
Useful Links
TSC SNP Downloads
HapMap Samples at Coriell Institute
HapMap Project Press Release
NHGRI HapMap Page
NCBI Variation Database (dbSNP)
Japanese SNP Database (JSNP)
News
  • 2013-06-14: HapMap data conversion tool

    There are several inquires for a conversion tool to convert HapMap data into the VCF format. Please take a look of The Genome Analysis Toolkit (by Broad Institute).

  • 2012-12-06: Downtime for hardware maintenance

    From December 15 - 16, Hapmap site will be taken offline for an internal hardware maintenance. Sorry for the inconvenience.

  • 2011-06-13: HapMap help desk announcement

    There was a problem with the HapMap help desk system. In the past several weeks, emails sent to hapmap-help@ncbi.nlm.nih.gov did not reach the help desk, and thus user requests were not addressed. Please resend your email request if you sent emails to the HapMap help desk in the past several weeks. Sorry for the inconvenience.

  • 2011-04-20: Hapmap help desk service interruption notice

    There will be no help desk support from 05/03/2011 to 05/23/2011. Sorry for the inconvenience.

  • 2011-02-02: Haploview issues with rel 28 data

    Recently, there are several questions about Haploview data format errors when users tried to analyze HapMap release 28 data. The current Haploview version (4.2) does not recognize the new individuals in release 28 and the software will generate an error similar to "Hapmap data format error: NA18876" when trying to open the data.

    Haploview is developed and maintained by an organization different from HapMap. Please contact Haploview help desk (haploview@broadinstitute.org) for questions specific to this software.

  • 2011-01-19: HapMap phase II recombination rate on GRCh37

    The liftover of the HapMap II genetic map from human genome build b35 to GRCh37 is available. Data is available for bulk download.

  • 2010-08-18: HapMap Public Release #28

    Genotypes and frequency data in hapmap format are now available for data in merged HapMap phases I+II+III release #28 (NCBI build 36, dbSNP b126). Data is available for bulk download and also available for browsing. Click here to read the latest release notes.

  • 2010-05-28: HapMap3 Public Release #3

    Genotypes and frequency data in hapmap format are now available for data in HapMap phase 3 release #3 (NCBI build 36, dbSNP b126). Data is available for bulk download and also available for browsing. Click here to read the latest release notes.

  • 2010-05-28: HapMap3 CNV Genotypes

    Copy Number Variation genotypes for HapMap phase samples are available for bulk download.

  • 2009-12-10: Corrected HapMap3 phased haplotypes available for chromosome X

    Phased haplotypes for consensus HapMap3 release 2 data for chromosome X has been corrected and the new data are now available for bulk download. Sorry for any inconvenience this might have caused.

  • 2009-12-02: HapMap3 phased haplotypes available for chromosome X

    Phased haplotypes for consensus HapMap3 release 2 data has been phased for chromosome X and are now available for bulk download. [Update: The downloading was disabled because several users have found that there are repeating data in some of the chrX phasing data files. The data source is being contacted and the downloading will be enabled as soon as the problem is cleared.]

  • 2009-11-18: Short downtime for hardware maintenance

    There will be a 30-minute downtime for Hapmap site on Nov. 23, 2009 between 8:30 am - 9:00 am (EST). Sorry for any inconvenience. [Update: Maintenance completed.]

  • 2009-11-05: NCBI Scheduled maintenance

    NCBI servers will undergo maintenance beginning November 13 at 3:00 p.m. to November 14 at 8:00 p.m. (EST). Therefore, some NCBI services may be intermittently slow or inaccessible. Please contact NCBI with concerns: info at ncbi.nlm.nih.gov. [Update: NCBI Scheduled maintenance compleleted.]

  • 2009-11-03: Database maintenance notice

    HapMap is scheduled to have a database maintenance from 5:00pm 11/06/2009 - 8:00am 11/09/2009 EST. The site will be inaccessible during the maintainence. Sorry for the inconvenience. [Update: Database maintenance compleleted.]

  • 2009-04-02: HapMap3 CEL files available

    Raw signal intensity data from HapMap3 genotypes on the Genome-Wide Human SNP Array 6.0 are now available for bulk download.

  • 2009-02-09: HapMap3 Phased Haplotypes available

    Phased haplotypes for consensus HapMap3 release 2 data has been phased for autosomes are now available for bulk download.

  • 2009-02-06: HapMap Public Release #27 (merged II+III)

    Genotypes and frequency data for the three phases of the project (I+II: rel #24 and III: release #2), were combined in NCBI build 36 (dbSNP b126) coordinates. Data is available for downloading and also available for browsing. Click here to read the latest release notes.

  • 2009-01-07: HapMap Phase 3 draft 2 release available for download

    Genotypes and frequency data for phase 3 (NCBI build 36, dbSNP b126) of the HapMap are available for bulk download. This dataset will subsequently be merged with phase I+II data, and once merged, the complete dataset will be made available in the HapMap genome browser and HapMart utility. Here are some notes and SNP counts for this dataset.


  • Old News

Participating Groups   Funding Agencies
Baylor College of Medicine (USA)
Beijing Genomics Institute (China)
Beijing Normal University (China)
Broad Institute of Harvard and MIT (USA)
Center for Statistical Genetics, University of Michigan (USA)
Chinese National Human Genome Center at Beijing (China)
Chinese National Human Genome Center at Shanghai (China)
Cold Spring Harbor Laboratory (USA)
Eubios Ethics Institute (Japan)
Health Sciences University of Hokkaido (Japan)
Hong Kong University of Science and Technology (China)
Howard University (USA)
Illumina (USA)
  Johns Hopkins School of Medicine (USA)
McGill University & Génome Québec Innovation Centre (Canada)
ParAllele BioScience (USA)
Perlegen Sciences (USA)
RIKEN (Japan)
The Chinese University of Hong Kong (China)
The University of Hong Kong (China)
University of California, San Francisco (USA)
University of Ibadan (Nigeria)
University of Oxford (UK)
University of Oxford / Wellcome Trust Centre for Human Genetics (UK)
University of Tokyo (Japan)
University of Utah (USA)
Washington University, St. Louis (USA)
Wellcome Trust Sanger Institute (UK)
  Chinese Academy of Sciences
Chinese Ministry of Science and Technology
Delores Dore Eccles Foundation
Genome Canada
Génome Québec
Hong Kong Innovation and Technology Commission
Japanese Ministry of Education, Culture, Sports, Science and Technology
Natural Science Foundation of China
The SNP Consortium
U.S. National Institutes of Health (NIH)
University Grants Committee of Hong Kong
Wellcome Trust
W.M. Keck Foundation

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Please send questions and comments on website to hapmap-help@ncbi.nlm.nih.gov