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Published 20 hours ago • verified publisher icon yarden

Alternative Splicing Events annotations for GRCh38.

Open edkonyakhina opened this issue 5 years ago • 3 comments

Hello! I use GRCh38 reference in my work. Could you provide Alternative Splicing Events annotations for this reference or tell how can I make it? I need annotations for Intron Retention.

Many thanks, Evgeniya

edkonyakhina avatar Aug 03 '18 16:08 edkonyakhina

We were planning to run liftOver to generate these from the hg19 versions but would rather not have to do that. Any timeline on a solution to this or is it not currently planned?

rdmorin avatar Nov 10 '18 00:11 rdmorin

I think you might be better off building it yourself with index_gff and download the gff3 from the table browser. And may not work on entire genome due to issues, So pick genes that you interested in. I found that the hg19 annotation were wrong at best and not complete.

husamia avatar May 22 '20 16:05 husamia

Does anyone has done the annotation file before or could you please share some experiences with me to chose the suitable one?

CharlaChai avatar May 12 '23 00:05 CharlaChai