List or database of regulatory SNPs
0
1
Entering edit mode
9.4 years ago

I am looking for lists/databases of known (primarily homo-sapien) regulatory SNPs ("causal SNPs")

One resource that I have already found that used to (now inactive) accomplish exactly this: http://oreganno.org/ "The Open REGulatory ANNOtation database (ORegAnno) is an open database for the curation of known regulatory elements from scientific literature."

Please point me to any other sources including any recent papers with such curated lists

Thank you!

SNP • 2.3k views
ADD COMMENT
0
Entering edit mode

What definition of regulatory are you using? If you wanted, you could look up "GWAS catalog" to find SNPs with downstream consequences or compile across eQTL studies.

Alternately, if you want SNPs in regulatory regions, you could intersect a modified vcf file with the bed genome annotations for regulatory regions.

ADD REPLY
0
Entering edit mode

I am looking for SNPs that have been experimentally verified to be causal.

ADD REPLY
0
Entering edit mode

One of the first search engine hits points back to Biostars: Database For Causal Genetic Variants

ADD REPLY

Login before adding your answer.

Traffic: 1400 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6