Question: Getting Precomputed Conservation Scores
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gravatar for GabrielMontenegro
3.5 years ago by
United Kingdom
GabrielMontenegro560 wrote:

I have a list of millions of SNPs (rs IDs) and I wanted to know if these are highly conserved sites based on conservation metrics, for example: PhastCons, GERP or SiPhy scores.

I was trying to find precomputed scores for these metrics, but wasn't very successful at finding them. I could find precomputed conservation scores for the GERP metric, but I wanted to contrast these scores with others and that's why I was asking for help.

Thank you.

snp conservation genome • 1.1k views
ADD COMMENTlink modified 3.5 years ago by Santosh Anand5.2k • written 3.5 years ago by GabrielMontenegro560
0
gravatar for Santosh Anand
3.5 years ago by
Santosh Anand5.2k
Santosh Anand5.2k wrote:

It will be easier to do it by using ANNOVAR filter-based annotation

http://annovar.openbioinformatics.org/en/latest/user-guide/filter/

You may use dbNSFP database of ANNOVAR for your current purpose. But there are many other DBs that might interest you, just have look.

ADD COMMENTlink written 3.5 years ago by Santosh Anand5.2k
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