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>hello all, I am new to the list and new to R. My goal is to look for ontologies that have to do with immune response and defense in the GO dealing with my microarrays. I have created the lists with aafGO() function, and just don't quite know where to do from there. Everytime i try to do a search or build a graph, R shuts itself down. Any suggestions? Thanks, Christina Here is an example on how to get the probe ids on the HG-U 95Av2 chip corresponding to immune response and defense: >library(annotate) >library(GO) >library(hgu95av2) >goids <- unlist(eapply(GOTERM, FUN = function(x){ if(Term(x) == "immune response" || Term(x) == "defense") return(TRUE) return(FALSE) })) > probes <- mget(names(goids[goids]), hgu95av2GO2PROBE) > all.probes <- mget(names(goids[goids]), hgu95av2GO2ALLPROBES) Only immune response was found. Is defense a valid GO term? > > >--------------------------------- > > [[alternative HTML version deleted]] > >_______________________________________________ >Bioconductor mailing list >Bioconductor at stat.math.ethz.ch >https://stat.ethz.ch/mailman/listinfo/bioconductor Jianhua Zhang Department of Medical Oncology Dana-Farber Cancer Institute 44 Binney Street Boston, MA 02115-6084