Gene Ontology Annotations

We have developed a computational pipeline for GO annotation and will apply it to all species in the next HGD/HymenopteraMine update anticipated in Fall 2020. For now, GO annotation is available for Apis mellifera. This GO annotation data is not yet loaded into HymenopteraMine. Please cite HGD if you use this GO annotation data.

 

GO annotation file in gaf format

Apis_mellifera_HGD_go_annotation.gaf

 

GO ontology file used in developing this annotation release

go.obo (from the Gene Ontology Consortium)

 

User friendly tab delimited files separated according to ontology

Columns are 1) NCBI gene id, 2) list of GO ids separated by semi-colons, 3) list of GO descriptions separated by semi-colons, with same order as GO ids in column 2.

Apis_mellifera_BP_with_descriptions.txt

Apis_mellifera_MF_with_descriptions.txt

Apis_mellifera_CC_with_descriptions.txt

 

Files formatted for input to command line GeneMerge

Description Files (not organism-specific):

biological_process_description.txt

molecular_function_description.txt

cellular_component_description.txt

 

Association files (see below for explanation of "all" and "direct"):

Apis_mellifera_BP_all.txt

Apis_mellifera_BP_direct.txt

Apis_mellifera_MF_all.txt

Apis_mellifera_MF_direct.txt

Apis_mellifera_CC_all.txt

Apis_mellifera_CC_direct.txt

Note that the "direct" files contain the annotations provided in the gaf file 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 on the David website.