Hi, This probably seems silly compared to the important work professionals like yourself do, but genetics is currently just a hobby of mine. I'm mainly interested in analyzing my 23andMe results (and those of my friends and family) as a way to further my education in genetics and make it personally concrete. For example, there are some interesting population genetics results in the literature around population structure which I'd like to apply (and perhaps make available to the personal genetics community where it makes sense). This would include analysis methods like comparing individuals to identify regions half identical-by-descent, finding runs of extended homozygosity, and perhaps machine learning methods (HMM, etc.) for classifying genome regions into population sub-groups.
But yes I'm also interested in dbSNP lookup and connection to other data sources (like HapMap) in order to provide analysis of specific regions beyond what the standard websites give you (eg. using LD to predict alleles relevant to specific traits/disease from strongly correlated genotyped SNPs). Since BJ doesn't really have anything for this yet, I think I'll continue building some tools on my own to better understand the constraints, and then try to figure out if there is something I can contribute back to BJ. I'm definitely interested to hear if you start something in BJ3 though - I'm happy to try to use it and help where I can. Thanks! Rick On Tue, May 25, 2010 at 6:10 AM, Sylvain Foisy <[email protected]>wrote: > Hi, > > What do you have in mind? Genetic data representation? Databse connections > , > like fetching SNP from dbSNP? Specific analysis methods? My lab is also > into > SNP big time and I have been looking for some like-minded people to start > some work on this in BJ3. > > Best regards > > Sylvain > > =================================================================== > > Sylvain Foisy, Ph. D. > Consultant Bio-informatique / Bioinformatics > Diploide.net - TI pour la vie / IT for Life > > Courriel: [email protected] > Web: http://www.diploide.net > Tel: (514) 893-4363 > =================================================================== > > > _______________________________________________ Biojava-l mailing list - [email protected] http://lists.open-bio.org/mailman/listinfo/biojava-l
