Converting Protein Accessions Into Protein Symbols
1
0
Entering edit mode
Dario Strbenac ★ 1.5k
@dario-strbenac-5916
Last seen 1 day ago
Australia

Now that UniMart is no longer part of BioMart, is there a way of using Bioconductor annotation packages to convert UniProt IDs (e.g. P15172) into protein names e.g. (MYOD1_HUMAN). These names don't seem to be available with UniProt.ws.

uniprot uniprot.ws • 902 views
ADD COMMENT
4
Entering edit mode
@james-w-macdonald-5106
Last seen 5 hours ago
United States

They are available - they aren't protein names however. It's just the HUGO symbol and species designation, which UniProt calls the 'entry-name'.

> library(UniProt.ws)
> up <- UniProt.ws()
> select(up, "P15172", "ENTRY-NAME","UNIPROTKB")
Getting extra data for P15172 NA NA etc
'select()' returned 1:1 mapping between keys and columns
  UNIPROTKB  ENTRY-NAME
1    P15172 MYOD1_HUMAN
ADD COMMENT

Login before adding your answer.

Traffic: 313 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