IGSR and the 1000 Genomes Project

1000 Genomes map 1000 Genomes map legend

The International Genome Sample Resource (IGSR) was established to ensure the ongoing usability of data generated by the 1000 Genomes Project and to extend the data set. More information is available about the IGSR.

Latest Announcements

Monday December 17, 2018

Variant calls from 1000 Genomes Project data calling against GRCh38

An integrated and phased biallelic SNV call set, generated from alignments of the 1000 Genomes phase three low coverage and exome sequence data, is available on our FTP site. These calls were called directly against GRCh38. This data set combines call sets generated using GATK, FreeBayes and BCFtools, with subsequent imputation and phasing carried out using Beagle and SHAPEIT2. A recent poster describing the methods used in generating this data is available and a data note is in preparation. We are also in the process of submitting the data to EVA/dbSNP.

The files include: per chromosome files with genotypes for all samples, a genome wide sites file and genotype files for each of the supporting call sets. The main files contain only unrelated individuals, with details for related individuals available in a separate set of files.

Data files are available at:

We will work toward releasing a pre-print of the data note as soon as possible but, in the meantime, please contact with any questions.