Hi Ed, You didn't follow the posting guide and give me an example to work with so I have to make one up. So here goes. Lets suppose that you had this GO term you were interested in: GO:0000127 "transcription factor TFIIIC complex", I also note that this term is a CC term. That detail will be important below. You can learn all this from the GOTERM mapping in the GO.db package BTW like this: library(GO.db) Term("GO:0000127") Ontology("GO:0000127") Now lets suppose that we wanted to know who the parent and child terms are for this GO ID. How would we do it? Like this: get("GO:0000127", GOCCPARENTS) get("GO:0000127", GOCCCHILDREN) And what if we wanted to know all the parents or all the children all the way up/down the DAG? Like this: get("GO:0000127", GOCCANCESTOR) get("GO:0000127", GOCCOFFSPRING) Hope this helps, Marc On 07/14/2011 09:17 AM, Ed wrote: > I would like to rephrase my question like, > > If I have a horizontal "cut" across the hierarchical structure of GO term at > the level of 5, for example, could I know their parent-child relationship > for the GO terms? > > Thanks, > > Ed > > On Thu, Jul 14, 2011 at 11:00 AM, Ed<edforum at="" gmail.com=""> wrote: > >> Hi there, >> >> I searched the archive and did not find the answer so I posted here and >> hope to get some suggestion.. >> >> I intend to extract GO terms at different level of GO's DAG; for example, I >> would like to know within BP, at the level of 3 to 5, what those GO terms >> are and what entrezgene ids are associated with each term. >> >> Thanks, >> >> Ed >> > [[alternative HTML version deleted]] > > _______________________________________________ > Bioconductor mailing list > Bioconductor at r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor