File Description: go-stats-no-pb
Usage
Same as the go-stats file, the primary stat file computed, but excluding direct annotations to GO:0005515 protein binding. Therefore, the total number of annotations is lower, as well as the number of annotated species (both total and filtered), and the number of annotated references.
Input data
Calculated as the File_Description:_go-stats, but excluding direct annotations to GO:0005515 protein binding.
Format(s)
json
File description
The go-stats
file contains the following information:
release_date
- release_date: Obtained from
release/metadata/release-date.json
orsnapshot/metadata/release-date.json
.
ontology
- valid_terms: Total number of valid terms (non-obsolete) in the ontology.
- obsolete_terms: Total number of terms with
obsolete
status (ie,term_ids
for which theis_obsolete
field is true in thego.obo
file) (this excludes merges). - merged_terms: Total number of merged terms (calculated by counting the
term_ids
for which the fieldis_obsolete
is true in thego.obo
file, and that also are are asalt_ids
of a valid term). - biological_process_terms: Total number of valid terms for the biological_process aspect.
- molecular_function_terms: Total number of valid terms for the molecular_function aspect.
- cellular_component_terms: Total number of valid terms for the cellular_component aspect.
- meta_statements: Total number of identifiers, alternative identifiers, namespace, term label, comments, synonyms, definitions, subsets, for each valid term.
- cross_references: Total number of cross_references, from the
xref
field of thego.obo
file. - terms_relations: Total number of relations; the count of all relations, using the fields
is_a
,intersection_of
andrelationship
of thego.obo
file. - changes_created_terms: Number of created terms since the previous release.
- changes_obsolete_terms: Number of terms obsoleted since the previous release.
- changes_merged_terms: Number of created merged since the previous release.
annotations
- total: The total number of annotations.
- by_aspect: P, F, C.
- by_bioentity_type:
- all: Number of annotations for each bioentity type.
- cluster: Number of annotations for each bioentity type cluster.
- by_taxon: Number of annotations for each of the annotated species in the database.
- by_evidence
- by_model_organism: For each species, the number of annotations are shown:
- by evidence: number of annotations for each individual evidence code, detailed by aspect.
- by_evidence_cluster: Number of annotations for each evidence cluster (PHYLO, IEA, OTHER, EXP, ND , HTP), detailed by aspect.
- by_group: Number of annotation for each contributing group, obtained using the
assigned_by
field of each input file.
taxa
- taxa: Number of species with annotations.
- taxa_filtered: Number of species with at least 1,000 annotations.
bioentities
- total: Total number of annotated bioentities.
- by_bioentity
- all: Number of annotated bioentities by bioentity type.
- by_type_cluster: Number of annotated bioentities grouped by clusters.
- by_filtered_taxon:
- all: number of annotations for each species, by bioentity type.
- by_type_cluster: number of annotations for each species, by bioentity_type_cluster.
references
- all
- total: Total number of distinct annotated references (includes PMIDs, GO_REFs, DOIs, internal IDs for Model Organism Databases and Reactome (note that for papers with both a PMID and an internal reference ID, the paper is counted twice).
- by_filtered_taxon: Total number of annotated references by species.
- by_group: Total number of annotated references for each contributing group, obtained using the
assigned_by
field.
- pmids
- total: Total number of annotated PMIDs.
- by_filtered_taxon: Total number of annotated PMIDs by species.
- by_group: Total number of annotated PMIDs for each contributing group, obtained using the
assigned_by
field.
Direct access to files
snapshot
http://snapshot.geneontology.org/release_stats/go-stats-no-pb.json
current
http://current.geneontology.org/release_stats/go-stats-no-pb.json
Review Status
Last reviewed: October 24, 2019