Hello,
A few months ago I wrote an R script that used the Ensembl Plants
biomart (version 8 and dataset
Arabidopsis Thaliana) to get the corresponding uniprot identifiers for a
list of refseq_dna identifiers e.g.
Arabidopsis = useMart("plant_mart_9", dataset="athaliana_eg_gene")
x<- getBM(attributes = c("refseq_dna","uniprot_swissprot_accession"),
values=c("NM_122767"),
mart=Arabidopsis, filters =
c("refseq_dna"))
This, however, no longer works for version 9 of the database as
"uniprot_swissprot_accession" and "uniprot_sptrembl"
attributes no longer exist in version 9 of the biomart. Is this a deliberate
omission and if so can version 8 of the Ensembl
Plant biomart be accessed elsewhere?
Thank you.
Dr. Howsun Jow.
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