[BioC] Gene Ontology relationships

davidl at unr.nevada.edu davidl at unr.nevada.edu
Fri Jun 1 01:00:23 CEST 2007

Hello all,

    I was just wondering if there is an easy way to start with a list of Gene
Ontology terms and to end with an interpretable map of their
inter-relationships.  This would hopefully either connect terms that are
siblings/parents/children of one another or would spit out an induced GO graph
with the listed Gene Ontology terms labeled.  The reason I was wondering if
something like this exists is that I obtained a list of 365 over represented
Gene Ontology terms in a subset of my data using the hyperGTest function (with
conditional being true) but this list contains a lot of terms which appear to
be closely related to one another (despite ignoring genes of significantly over
represented children terms in determining over representation of the parents). 
 I would like to be able to see how the terms are related to each other
visually so that I could more easily pick for verification GO terms (and genes
belonging to these GO terms) that seem appropriately representative of the
related groups.  I am definately open to any suggestions that would accomplish
this sort of thing, including the names of package Vignettes which I have
failed to read completely.  Thank you very much in advance,


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