VAT/dataSets

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(Main 1000 Genomes Project, Phase I, SNP calls)
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==== Main 1000 Genomes Project, Phase I, SNP calls ====
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==== 1000 Genomes Project, Phase I, SNP calls ====
  - Data files: release: 20100804, FTP: ftp://ftp-trace.ncbi.nih.gov/1000genomes/ftp/release/20100804/
  - Data files: release: 20100804, FTP: ftp://ftp-trace.ncbi.nih.gov/1000genomes/ftp/release/20100804/

Revision as of 18:26, 8 March 2011

VAT Main Page

Contents


Data sets

1000 Genomes Project

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1000 Genomes Pilot Project: Low coverage samples

- Data files:
    - Source: pilot_data, release: 2010_07, FTP:  ftp://ftp-trace.ncbi.nih.gov/1000genomes/ftp/pilot_data/release/2010_07/low_coverage/
    - Indels
        - CEU.low_coverage.2010_07.indel.genotypes.vcf.gz
        - JPTCHB.low_coverage.2010_07.indel.genotypes.vcf.gz
        - YRI.low_coverage.2010_07.indel.genotypes.vcf.gz
    - SNPs
        - CEU.low_coverage.2010_07.genotypes.vcf.gz
        - CHBJPT.low_coverage.2010_07.genotypes.vcf.gz
        - YRI.low_coverage.2010_07.genotypes.vcf.gz
- Annotation file
    - GENCODE (version 3b, hg18) using CDS elements where gene_type = protein_coding and transcript_type = protein_coding
- Results
    - VAT


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1000 Genomes Project, Phase I, SNP calls

- Data files: release: 20100804, FTP: ftp://ftp-trace.ncbi.nih.gov/1000genomes/ftp/release/20100804/
    - SNPs
        - ALL.2of4intersection.20100804.genotypes.vcf.gz
- Annotation file
    - GENCODE (version 3c, hg19) using CDS elements where gene_type = protein_coding and transcript_type = protein_coding
- Results
    - VAT
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