we are using vcf2maf prior to import to our local cBioPortal instance. We encounter a warning from cBioPortal's data validator that the MAF data contains Hugo Symbol:Entrez ID combinations that are incorrect.
Upon deeper inspection, the "ensg_to_entrez_id_map_ensembl_feb2014.tsv" file contains multiple instances where several Entrez ID's trace back to the same ENSG#, but no additional columns exist in the file to successfully pair the Hugo symbol to the specific Entrez from the cluster and so the pipeline incorrectly assigns the values.
we are using vcf2maf prior to import to our local cBioPortal instance. We encounter a warning from cBioPortal's data validator that the MAF data contains Hugo Symbol:Entrez ID combinations that are incorrect.
Upon deeper inspection, the "ensg_to_entrez_id_map_ensembl_feb2014.tsv" file contains multiple instances where several Entrez ID's trace back to the same ENSG#, but no additional columns exist in the file to successfully pair the Hugo symbol to the specific Entrez from the cluster and so the pipeline incorrectly assigns the values.