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Alberto Goldoni
▴
420
@alberto-goldoni-3477
Last seen 10.3 years ago
HI to everybody,
i'm using the "gene2pathway" package but i'm not able to obtain
something right.
i'm using gene2pathway.signaltrans in order to predict a gene's
membership to a KEGG signaling pathway and/or pathway component via
the contained InterPro domains and in my case for the gene="19713",
that represent RET proto oncogene
(http://www.uniprot.org/uniprot/P35546).
But something is wrong as you can see down there....someone can help
me?
> pred.comp = gene2pathway.signaltrans("19713", organism = "hsa")
Using KEGG information from SOAP service ...
Mapping to signal transduction pathway components via KEGG database
...
---> Information found for 0 genes
done.
1 genes to predict
Retrieving information from InterPro database for organism ' hsa ' via
Ensembl ...
Checking attributes ... ok
Checking filters ... ok
Error in gene2pathway:::getInterProDomains(topredict, gene2Domains =
gene2Domains, :
No mapping Entrez gene ID -> InterPro found!
Best regards.
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Dr. Alberto Goldoni
Bologna, Italy