GO annotations were computed at HGD. See file and directory descriptions below.
File and directory descriptions:
go.obo = the Gene Ontology file used in computational annotation and creation of GeneMerge description files. Downloaded from the Gene Ontology Consortium.
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gaf directory = GO Annotation format (GAF) files (species-specific):
[species_name]_HGD_go_annotation.gaf
GAF format is described here.
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genemerge directory = Files formatted for input to command line GeneMerge.
Description files (the same files are used for all species):
biological_process_description.txt
molecular_function_description.txt
cellular_component_description.txt
Association files (species-specific):
[species_name]
[species_name]_BP_direct.txt
[species_name]_MF_all.txt
[species_name]_MF_direct.txt
[species_name]_CC_all.txt
[species_name]_CC_direct.txt
Note that the "direct" files contain the GO terms provided in the gaf files above. The "all" files contain the direct annotations as well as all of their parent terms, up through the heirarchy. These are comparable to the "direct" and "all" datasets provided by the David Bioinformatics Resources.