Biological interlocked Process Ontology for metabolism

Last uploaded: April 21, 2020

Details

Acronym	BIPOM
Visibility	Public
Description	BiPOm is an ontology based on systemic representation of metabolic processes. BiPOm is an ontological model carrying the main biological processes and molecular roles/functions at a high level of genericity where the usual annotated resources are treated as instances. BiPOm, 1) contains biological knowledge as instances and 2) uses automatic reasoning through Semantic Web Rule Language (SWRL) in order to automatically infer, formalize and refine properties of molecules.
Status	Alpha
Format	OWL
Contact	Anne Goelzer, anne.goelzer@inrae.fr
Categories	All Organisms

Version	Released	Uploaded	Downloads
Core (Parsed, Indexed, Metrics, Annotator)	04/15/2020	04/21/2020	OWL \| CSV \| RDF/XML \| Diff
Core (Archived)	04/15/2020	04/18/2020	OWL
Core (Archived)	04/15/2020	04/15/2020	OWL

BiPOm inferences for Calvin cycle: BiPOm instantiated with metabolic reactions and post-translational modifications for the Calvin cycle followed by SWRL rules based reasoning.
BiPOm Calvin cycle instantiation: BiPOm instantiated with metabolic reactions and post-translational modifications for the Calvin cycle.
BiPOm E-Coli metabolism instantiation: BiPOm instantiated with metabolic reactions and post-translational modifications for the metabolism of Escherichia coli.
BiPOm inferences for E-Coli metabolism: BiPOm instantiated with metabolic reactions and post-translational modifications for the metabolism of Escherichia coli followed by SWRL rules based reasoning.

Classes	142
Individuals	5
Properties	28
Maximum depth	9
Maximum number of children	9
Average number of children	2
Classes with a single child	23
Classes with more than 25 children	0
Classes with no definition	88

No projects using BIPOM

Id	http://purl.obolibrary.org/obo/BiPOm#ligase_activity http://purl.obolibrary.org/obo/BiPOm#ligase_activity
Preferred Name	ligase activity
Definitions	Catalysis of the joining of two substances, or two groups within a single molecule, with the concomitant hydrolysis of the diphosphate bond in ATP or a similar triphosphate.
Synonyms	synthetase activity
Type	http://www.w3.org/2002/07/owl#Class

label	ligase activity
prefLabel	ligase activity
hasDbXref	Reactome:REACT_115603 Reactome:REACT_116018 EC:6
notation	GO:0016874
inSubset	http://purl.obolibrary.org/obo/go#goslim_generic http://purl.obolibrary.org/obo/go#goslim_pir http://purl.obolibrary.org/obo/go#goslim_chembl http://purl.obolibrary.org/obo/go#goslim_metagenomics http://purl.obolibrary.org/obo/go#goslim_candida http://purl.obolibrary.org/obo/go#goslim_mouse http://purl.obolibrary.org/obo/go#goslim_aspergillus http://purl.obolibrary.org/obo/go#gosubset_prok http://purl.obolibrary.org/obo/go#goslim_yeast See more See less
id	GO:0016874
hasOBONamespace	molecular_function
IAO_0000115	Catalysis of the joining of two substances, or two groups within a single molecule, with the concomitant hydrolysis of the diphosphate bond in ATP or a similar triphosphate.
subClassOf	http://purl.obolibrary.org/obo/BiPOm#catalytic_activity
closeMatch	http://purl.obolibrary.org/obo/GO_0016874
type	http://www.w3.org/2002/07/owl#Class
hasExactSynonym	synthetase activity

Delete	Subject	Author	Type	Created
No notes to display

Notes

Filter: Hide Archived