I'm interested in genotyping 2 or 3 SNPs for a gene in breast cancer patients in indian population,
But as a preliminary study, I would like to perform a Linkage disequilibrium analysis for few SNps extracting data from 1000 genome project (as Linkage disequilibrium data is not available for few gene in ensemble). I feel this way its easy to select the SNps which are in disequilibrium and its association with disease in a population study
In this regard i need your help in downloading individual genotype data from 1000genome project.
During my failure trails in downloading the data. i have found a link suggesting to change some file using pearl scripts to get individual data from the database. please go through the following link and help me out
http://www.1000genomes.org/faq/can-i-get-genotypes-specific-individualpopulation-your-vcf-files
u better go through european nutrigenomics organisation (nugo) website in that site they are give more in formation about genome, bcz they are try to develop a practical way of nutrigenomics and all data are available(open access)............
You need the tabix tool installed:
http://sourceforge.net/projects/samtools/files/tabix/
You may also try the UCSC table browser, you may be able to get them form there.
first of all thanks to everyone for ur replys,
@Rohan i need individual SNP geneotype of NRP2 from 1000 genome project
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