BiomaRt attribute "description" doesn't return NCBI's gene summary anymore
0
0
Entering edit mode
Reese • 0
@4be8ee75
Last seen 22 days ago
Germany

Earlier, I could use biomaRt to retrieve information about genes (similiar to NCBI's gene summary), using code similar to this:


ensembl <- useMart(biomart = "ensembl", dataset = "mmusculus_gene_ensembl")
gene_entrez <- getBM(attributes = c("ensembl_gene_id", "mgi_symbol", "entrezgene_description"),
                         filters = "mgi_symbol", c("Sox8"),
                         mart = ensembl)

But now this code only returns the long version of the gene name (e.g. "Sox8 SRY (sex determining region Y)-box 8").

I am using biomaRt_2.58.2 R version 4.3.0 (2023-04-21 ucrt) Platform: x86_64-w64-mingw32/x64 (64-bit) Running under: Windows 10 x64 (build 19045)

Is there some other biomaRt attribute I haven't found yet that has similar info? Or are there other possibilities to get gene descriptions?

biomaRt • 162 views
ADD COMMENT

Login before adding your answer.

Traffic: 753 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