hcornu
13 October 2022 10:16
1
The latest update to Open Targets Genetics — version 8 — has been released!
Key highlights for this release include:
The integration of sQTLs from GTEx
An update to GWAS Catalog studies and FinnGen R6
The implementation of a Forest plot in the variant page
The creation of a new API page
Full details available in the accompanying blog post .
Version 8 — key numbers
With this release, Open Targets Genetics provides information on:
19,599 genes , including 3,912 Unique genes with L2G score>0.8
72,878,709 variants
6,344 trait EFOs , across 24 therapeutic areas
57,244 studies , of which 8,894 have full summary statistics/finemapping
146,433 independent disease/trait-associated loci
3,243,242 trait/trait colocalisation tests
Happy browsing!
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Hi. Thank you for sharing the update. Have the backend tables been uploaded to Google BigQuery too?
hcornu
14 October 2022 08:04
3
Hi @frahimov ! Yes, BigQuery should be updated now
1 Like
These tables are in “bigquery-public-data.open_targets_genetics”, correct?
The “open_targets_genetics” directory shows last modified on "Sep 20, 2022, 2:58:00 AM UTC-5 " but individual tables inside this directory were last modified on "Apr 30, 2022, 3:54:02 PM UTC-5 ".
Also, the number of rows, 3580861, of the locus2gene table is the same as in the one I downloaded in May 2022.
Am I looking at these data in the correct place?
hcornu
17 October 2022 10:42
5
Hi @frahimov !
Those tables are part of our Google BigQuery public dataset instance, and unfortunately, we don’t control when the public datasets are updated.
This data is up-to-date in our own BigQuery instance open-targets-genetics:genetics , if you would like to use that.
If not, we have a few other data access options that you can check out: Data Download - Open Targets Genetics Documentation
Hi @hcornu , Thank you for your response. Yes, I can access the data from your BigQuery instance. That works for me.
