Question: Change NBCI accession numbers to UNIPROT identifiers
0
gravatar for Darrill
4 weeks ago by
Darrill0
Darrill0 wrote:

Hi everyone, I have a list of NCBI Accession numbers such as:

YP_009332565.1
YP_009326565.1
YP_002354191.1
NP_028703.1
etc

And because mmseq taxonomy only deal with Uniprot id I need to convert them into Uniprot ids.

Does anyone have an idea or a tools to do such a work? Thank you for your help.

uniprot ncbi • 125 views
ADD COMMENTlink modified 4 weeks ago • written 4 weeks ago by Darrill0

I see I see thank you. But I'm looking for a program to run in terminal to include it on my pipeline directly...

ADD REPLYlink written 4 weeks ago by Darrill0
3

For programmatic mapping of IDs, you can use UniProt's REST API as described here: https://www.uniprot.org/help/api_idmapping

ADD REPLYlink written 4 weeks ago by vkkodali990

Thanks a lot it was what I was looking for.

ADD REPLYlink written 4 weeks ago by Darrill0
2
gravatar for b.nota
4 weeks ago by
b.nota6.3k
Netherlands
b.nota6.3k wrote:

You can use the uniprot website:

https://www.uniprot.org/uploadlists/

Use as input "RefSeq Protein" and as output "UniProtKB"

From your query only two are correct though...

ADD COMMENTlink written 4 weeks ago by b.nota6.3k
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