Retrieving Individual Genomes From 1000Genomes Project
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9.5 years ago
Alper Yilmaz ▴ 100

Hi all.. I was interested in retrieving individual genomes as fasta files from 1000genomes project. After some search I noticed that, the reference genome is available, individual sequencing reads (fastq format) are available, variant calls are available but individual assembled genomes are not available (or I couldn't find it). So, is it possible to locate individual genome files? Are they provided to public? I'm guessing that individual genomes might not be available due to privacy considerations..

thanks..

1000genomes genome • 2.2k views
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Entering edit mode
9.5 years ago

There is no privacy issue, but there was never any intention of trying to assemble (meaning making a haploid consensus) of each sample. The experimental design is low coverage on many samples (too low to do an individual assembly), with the goal of finding the majority of variation. So as Pierre says, the "main" product is a set of VCFs

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9.5 years ago

there is no assembly for the sequenced individuals, bit their variations are available: e.g:ftp://ftp.1000genomes.ebi.ac.uk/vol1/ftp/release/20100804

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