UCSC hg38 gene ID conversion to gene symbol
2
0
Entering edit mode
5.6 years ago

Dear all,

I've got a gene list of UCSC hg38 (something like this:"uc057bkb.1""uc057bke.1"). I want to convert them into gene symbol. I tried to use Table Browser, but still can't get gene symbol apart from "uc057bkb.1". Also, HGNC ID checker can't provide me with result other than "unmatched"

Is there anyway that I can convert this kind of ID into gene symbol?

Thanks a lot for help!

Edit:

Thank you guys! I finally got this fixed by selecting column in the output other than output all the column from hg38.knowgene . UCSC do host gene symbol, but you need to check this attribute in the hg38.kgXref table(There is one attribute for Gene Symbol).

Cheers!

gene • 4.0k views
ADD COMMENT
1
Entering edit mode
5.6 years ago

Ensembl Biomart to the rescue!

Annoyingly, the site seems crazy slow at the moment, but at least this is just a one-off thing.

ADD COMMENT
0
Entering edit mode
5.6 years ago

I found a similar question here: http://seqanswers.com/forums/showthread.php?t=22336

It's explained in this thread how to use the Table browser, although I haven't confirmed it does work.

ADD COMMENT

Login before adding your answer.

Traffic: 1571 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