gnomAD and Bravo to download loss-of-function annotation

Question

[Shicheng Guo]

Hi All,

I want to download the annotation of 'loss-of-function' annotation in gnomAD and Bravo database. However, it seem you can find these annotation when using web service. When you download the data-base, these annotation were not included in the files. Why? Any suggestion?

http://gnomad.broadinstitute.org/

https://bravo.sph.umich.edu/freeze3a/hg19/

Update: Problem solved. The annotation is actually existed in the download VCF files after 'VEP='

Thanks.

[WouterDeCoster]

Is there any reason you cannot do this annotation yourself?

[Shicheng Guo]

I tried different approaches. However, none of them could provide as comprehensive annotation as gnomAD annotation. They have the following categories.

start_lost
missense_variant
inframe_deletion
splice_donor_variant
splice_region_variant
frameshift_variant
inframe_insertion
stop_gained
splice_acceptor_variant
stop_lost
stop_retained_variant