Off topic:UniProt.ws version 2.10.2
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DHS • 0
@dhs-9731
Last seen 8.2 years ago
USA/Stanford

Dear BioConductor Community, I am using the UniProt.ws version 2.10.2 to retrieve features for my protein hitlists. I am particularly interested in the SUBCELLULAR LOCATION information.

While the info is available on uniprot.org (e.g.: http://www.uniprot.org/uniprot/P35579#subcellular_location) I seem to be unable to retrieve any SUBCELLULAR LOCATION information via the UniProt.ws package, I only get NA as results while other cols return the correct infos:

res <- select(up, "P35579", "REACTOME", "UNIPROTKB")
Getting mapping data for P35579 ... and REACTOME_ID
'select()' returned 1:many mapping between keys and columns
> res
  UNIPROTKB      REACTOME
1    P35579 R-HSA-5627117
2    P35579 R-HSA-5625900
3    P35579 R-HSA-5625740
4    P35579 R-HSA-5627123
5    P35579  R-HSA-416572
6    P35579 R-HSA-3928663
7    P35579 R-HSA-2029482

but

res <- select(up, "P35579", "SUBCELLULAR-LOCATIONS", "UNIPROTKB")
Getting extra data for P35579 NA NA etc
'select()' returned 1:1 mapping between keys and columns
> res
  UNIPROTKB SUBCELLULAR-LOCATIONS
1    P35579                  <NA>

So I wonder whether the SUBCELLULAR LOCATION info is actually updated in the package or whether this supporting data can be accessed in any other way?

Best,
D

 

 

 

 

uniprot.ws subcellular location uniprot • 610 views
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