Hi, I am trying to use biomaRt to query the ensembl database for all SNPs in the 5'UTR for a list of ensembl transcripts. Here is my code: SNP.germline = getBM( attributes = c("ensembl_transcript_id", "external_id", "chromosome_location"), filters = c("so_parent_name","ensembl_transcript_id"), values = list("5_prime_UTR_variant",utr5$transcript_id[1:10]), verbose = TRUE, mart = ens) This worked before, but now I am getting the following error: > Error in getBM(attributes = c("ensembl_transcript_id", "external_id", : > Query ERROR: caught BioMart::Exception::Database: Error during query > execution: You have an error in your SQL syntax; check the manual that > corresponds to your MySQL server version for the right syntax to use near > 'AND > (hsapiens_gene_ensembl__mart_transcript_variation__dm.consequence_ty pes_2076' > at line 1 I should add that the "ens" mart is the basic ensembl biomart. I use the ens biomart earlier in the code to generate a list of relevant transcripts, which stored as utr5$transcript_id. I don't want to use the "snp" mart because (1) it doesn't let me filter on transcript_id, only gene_id, and (2) it's slow [[alternative HTML version deleted]]