Links

Is the 1000 genomes data available in genome browsers?

Answer:

1000 Genomes Project data is available at both Ensembl and the UCSC Genome Browser.

More information on accessing 1000 Genomes Project data in genome browsers can be found on the Browser page.

Ensembl provides consequence information for the variants. The variants that are loaded into the Ensembl database and have consequence types assigned are displayed on the Variation view. Ensembl can also offer consequence predictions using their Variant Effect Predictor (VEP).

You can see individual genotype information in the Ensembl browser by looking at the Individual Genotypes section of the page from the menu on the left hand side.

Related questions:

Why are the coordinates of your pilot variants different to what is displayed in Ensembl or UCSC?

Answer:

The pilot data for the 1000 genomes project was all mapped to NCBI36/hg18 build of the human assembly. When the data was been loaded into dbSNP it was mapped to GRCh37/hg19 which is accessible from both Ensembl and UCSC but this does mean that the coordinates from the pilot data on the 1000 Genomes ftp site will be different to the coordinates presented in Ensembl and UCSC.

You can also view 1000 Genomes variants mapped to GRCh38 on Ensembl and UCSC.

Related questions: