BiomaRt attribute "description" doesn't return NCBI's gene summary anymore
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Reese • 0
@4be8ee75
Last seen 4 months 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 • 304 views
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