I’m interpreting GWAS data for a project, from the data I extracted 3 lead SNPs and created LD plots for each using haploview. Now that I have the locations/bp coordinates for each haplotype block, what would be the next step? My guess would be to search databases for variants which may exist within these blocks which may not have been included in the study. Would it be reasonable to search databases for each SNP associated with these blocks to see if there is a potential functional SNP? Where would I do such a thing? Is this the right train of thought? Any advice / suggested resources would be greatly appreciated.
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written
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petebrotherwood •
1 answer
I would assume that you are working with a researcher / geneticist who knows what they are doing - correct? I would seek their advice about what they want to do. The days of a bioinformatician being given some data to process and then magically come up with a solution to everything a few weeks later should be well behind us.
Kevin
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