Hi, I want to retrieve all human genes annotated with specific go_ids like GO:0003677 in the listFilters option I see 3 filters - 1) go- it is giving genes even with other go ids not in the query 2) with_go and with_go_go giving error that Error in getBM(attributes = c("go_id", "name_1006", "entrezgene", "hgnc_symbol", : biomaRt error: with_go_go is a boolean filter and needs a corresponding logical value of TRUE or FALSE to indicate if the query should retrieve all data that fulfill the boolean or alternatively that all data that not fulfill the requirement should be retrieved. Can you tell what is the difference between the three and which is the best option t be used. script I used tf<-read.table("tf_selection_criteria.csv",sep=",",header=TRUE) library(biomaRt) mart=useMart(biomart="ensembl",dataset="hsapiens_gene_ensembl") getBM(attributes=c("entrezgene")) data<-getBM(attributes=c("go_id","go","name_1006","entrezgene","hgnc_s ymbol","external_gene_id"),filters="go",values=tf[,2], mart=mart) Thanks Konika Chawla PhD candidate Department of Biology NTNU [[alternative HTML version deleted]]