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HapMap

Type

Dataset

Link

http://www.hapmap.org/

Source

Ckan.net

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.

Datasets From href="http://www.hapmap.org/downloads/index.html.en" target="_blank" rel="nofollow">http://www.hapmap.org/downloads/index.html.en


   The following directories contain HapMap project related data, software, and documentation, that have been made publicly available. (See [HTML_REMOVED] href="http://www.hapmap.org/datareleasepolicy.html" target="_blank" rel="nofollow"> HapMap Data Access Policy[HTML_REMOVED] for more information). More details about each dataset can be found in READMEs in the respective directories:
  
    Bulk data 

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  href="http://www.hapmap.org/genotypes/?N=D" target="_blank" rel="nofollow">Genotypes: Individual genotype data submitted to the DCC to date.   

\\xfc\\xfdli\\xfd\\xfc\\xfc\\xfda href="http://www.hapmap.org/downloads/ld_data/?N=D" target="_blank" rel="nofollow"\\xfd\\xfcLD Data\\xfc\\xfd/a\\xfd\\xfc: Linkage disequilibrium properties D', LOD , R2 compiled from the genotype data to date\\xfc\\xfd/li\\xfd\\xfc

  href="http://www.hapmap.org/downloads/phasing/?N=D" target="_blank" rel="nofollow">Phasing Data: Phasing data generated using the PHASE software, compiled from the genotype data to date.
  href="http://www.hapmap.org/downloads/allocated_snps/?N=D" target="_blank" rel="nofollow">Allocated SNPs: dbSNP reference SNP clusters that have been picked and prioritized for
  genotyping according to several criteria (see info on  href="http://www.hapmap.org/downloads/snp_categories.html" target="_blank" rel="nofollow">how SNPs were selected). The file 00README contains per-chromosome SNP counts and further details.
     href="http://www.hapmap.org/downloads/frequencies/?N=D" target="_blank" rel="nofollow">Frequencies: Allele  genotype frequencies compiled from genotyping data submitted to the DCC to date. These have also been submitted to  href="http://www.ncbi.nlm.nih.gov/SNP/" target="_blank" rel="nofollow">dbSNP and should be available in the next dbSNP build.
 \\xfc\\xfdli\\xfd\\xfc\\xfc\\xfdb\\xfd\\xfc\\xfc\\xfda href="http://www.hapmap.org/downloads/recombination/latest/" target="_blank" rel="nofollow"\\xfd\\xfcRecombination rates and Hotspots\\xfc\\xfd/a\\xfd\\xfc\\xfc\\xfd/b\\xfd\\xfc: Recombination rates and hotspots compiled from the genotyping data.
  href="http://www.hapmap.org/downloads/assays/?N=D" target="_blank" rel="nofollow">SNP assays: Details about assays submitted to the DCC to date. PCR primers, extension probes etc., specific to each genotyping platform. 
     href="http://www.hapmap.org/downloads/perlegen_amplicons/?N=D" target="_blank" rel="nofollow">Perlegen amplicons: Details for mapping Perlegen amplicons to HapMap assayLSID. For primer sequences, see  href="http://genome.perlegen.com/pcr" target="_blank" rel="nofollow">Perlegen's Long Range PCR Amplicon data.  
   href="http://www.hapmap.org/downloads/raw_data/?N=D" target="_blank" rel="nofollow">Raw data: Raw signal intensity data from HapMap genotypes. Currently includes data from Affymetrix GeneChip 100k and 500k Mapping Arrays.
     href="http://www.hapmap.org/downloads/inferred_genotypes/?N=D" target="_blank" rel="nofollow">Inferred genotypes: Genotypes inferred using the method of Burdick et al.  Nat Genet 38:1002-4.
   

Openness: OPEN


    License: see  href="http://www.hapmap.org/datareleasepolicy.html" target="_blank" rel="nofollow">http://www.hapmap.org/datareleasepolicy.html


    Access: good

    bulk: yes.


    web: yes.  href="http://www.hapmap.org/cgi-perl/gbrowse/gbrowse">generic genome browser and report generation using  href="http://hapmart.hapmap.org/BioMart/martview">HapMart
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