UCSC hg38 gene ID conversion to gene symbol

Question

[izzy.yichao.cai]

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!

Answer 1

[Devon Ryan]

Ensembl Biomart to the rescue!

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

Answer 2

[WouterDeCoster]

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.