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6.9 years ago
robust1308
•
0
Hello, I'm new to this major, and I have a question. Where can I get available data for SNP Proxy like the result form Proxy Search in http://archive.broadinstitute.org/mpg/snap/ldsearch.php
I have searched for it but no luck. I found that Ensenbl they have something awesome like this: http://www.ensembl.org/Homo_sapiens/Variation/HighLD?db=core;r=7:24926327-24927327;v=rs123;vdb=variation;vf=119#373508_tablePanel from this post Pre-computed list of genes in LD with a SNP with r2 from 1000Genomes / hg19 .
But unlucky, I can not use the Ensembl API for my task. Is there a way to calculate this using public dataset from Ensembl or any others resource.
Many thanks !!!
Try LDlink, haploreg ?
Hello, zx8754, Thank for your information, but I intent to write a python script that take Ensembl or others source and output is SNP Proxy.
We can download the data from haploreg - http://archive.broadinstitute.org/mammals/haploreg/data/