1000 genomes newbie question

[brofallon]

Hi all, total beginner here. I'm interested in obtaining phased sequences for a specific region (G6PD, say) from a bunch of individuals from African populations, and thought 1000 genomes may be a good place to start looking. I'd love to end up with something like a fasta file containing relatively high quality data, even for just a few dozen individuals. I've perused 1000genomes.org, but I'm getting a bit overwhelmed with the various file formats, releases, tools, browsers, etc. Any advice on what the easiest way to go about getting phased sequences for a particular region from a bunch of individuals might be? I'm convinced that there must be some relatively painless way to do this....

Thanks in advance!

[laura]

The 1000 Genomes project has released phased variants for 629 individuals

ftp://ftp.1000genomes.ebi.ac.uk/vol1...notypes.vcf.gz

including a couple of african populations (YRI, LWK, ASW)

We have no plans to produce fasta files which contains these variants annotated but you can certainly get a small section of this file using tabix and vcftools http://www.1000genomes.org/faq/how-d...ction-vcf-file and then annotate the correct fasta file yourself