[Biojava-l] Ontology OBO is_a TERMs

JP jp at javaclass.co.uk
Thu Jul 23 11:15:47 UTC 2009

Hi there at Biojava,

I have an ontology file (from www.geneontology.org, gene_ontology.1_2.obo).
A typical entry for a term is:

id: GO:0000025
name: maltose catabolic process
namespace: biological_process
def: "The chemical reactions and pathways resulting in the breakdown of the
disaccharide maltose (4-O-alpha-D-glucopyranosyl-D-glucopyranose)." [GOC:jl,
ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"]
subset: gosubset_prok
synonym: "malt sugar catabolic process" EXACT []
synonym: "malt sugar catabolism" EXACT []
synonym: "maltose breakdown" EXACT []
synonym: "maltose degradation" EXACT []
synonym: "maltose hydrolysis" NARROW []
is_a: GO:0000023 ! maltose metabolic process
is_a: GO:0046352 ! disaccharide catabolic process

I am reading this with the code suggested in:
I would like to get the is_a entries (as Term) - is this possible ? I tried
to find this everywhere (annotations?) but find it (google searches

Many Thanks

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