Protein modification Summary

Metrics

Number of classes:	1338
Number of individuals:	0
Number of properties:	6
Maximum depth:	7
Maximum number of siblings:	132
Average number of siblings:	1
Classes with a single subclass:	83 Classes with a single subclass MOD:00012 MOD:00013 MOD:00015 MOD:00030 MOD:00071 MOD:00075 MOD:00083 MOD:00307 MOD:00363 MOD:00418 MOD:00421 MOD:00422 MOD:00437 MOD:00441 MOD:00449 MOD:00451 MOD:00452 MOD:00453 MOD:00454 MOD:00455 MOD:00456 MOD:00457 MOD:00458 MOD:00459 MOD:00467 MOD:00468 MOD:00469 MOD:00502 MOD:00505 MOD:00507 MOD:00509 MOD:00538 MOD:00547 MOD:00552 MOD:00585 MOD:00594 MOD:00612 MOD:00645 MOD:00653 MOD:00654 MOD:00655 MOD:00659 MOD:00661 MOD:00666 MOD:00667 MOD:00689 MOD:00710 MOD:00713 MOD:00714 MOD:00715 MOD:00716 MOD:00717 MOD:00718 MOD:00736 MOD:00740 MOD:00746 MOD:00749 MOD:00753 MOD:00767 MOD:00789 MOD:00790 MOD:00823 MOD:00837 MOD:00841 MOD:00847 MOD:00849 MOD:00852 MOD:00855 MOD:00856 MOD:00866 MOD:00880 MOD:00885 MOD:00887 MOD:00888 MOD:00927 MOD:00943 MOD:01148 MOD:01187 MOD:01223 MOD:01285 MOD:01293 MOD:01336 MOD:01358
Classes with more than 25 subclasses:	11 Classes with more than 25 subclasses MOD:00004 (87) MOD:00848 (41) MOD:00905 (132) MOD:00919 (32) MOD:00912 (40) MOD:00947 (130) MOD:01156 (28) MOD:00908 (30) MOD:00916 (49) MOD:00725 (37) MOD:00909 (37)
Classes with no definition:	0

Details

Ontology Id	1041
Acronym	MOD
Visibility	Public
BioPortal PURL	http://purl.bioontology.org/ontology/MOD
Status
Format	OBO
Categories
Groups	Proteomics Standards Initiative
Contact	Psi-mod Administrators, luisa@ebi.ac.uk
Home Page	http://psidev.sourceforge.net/mod/
Publications Page
Documentation Page	http://psidev.sourceforge.net/mod/
Description	PSI-MOD is an ontology consisting of terms that describe protein chemical modifications, logically linked by an is_a relationship in such a way as to form a direct acyclic graph (DAG). The PSI-MOD ontology has more than 45 top-level nodes, and provides alternative hierarchical paths for classifying protein modifications either by the molecular structure of the modification, or by the amino acid residue that is modified.

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Versions

Version	Release Date	Upload Date	Downloads
See Remote Site	04/20/2008	03/03/2010	Ontology / Diff
See Remote Site	02/28/2010	04/13/2009	Ontology
1.317	11/27/2007	11/27/2007	Ontology

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Project	Description	People	Institution
NCBO Resource Index	The NCBO Resource Web service is a system for ontology based a... The NCBO Resource Web service is a system for ontology based annotation and indexing of biomedical data; the key functionality of this system is to enable users to locate biomedical data resources related to particular ontology concepts. The annotations are generated using the NCBO Annotator and presented through integration with BioPortal, enabling researchers to search for biomedical resources associated (annotated) with specific ontology terms. The NCBO Resources web service uses a concept recognizer (currently provided by the National Center for Integrative Biomedical Informatics, University of Michigan) to produce a set of annotations and expand these using ontology is_a relations in the ontology. The system's indexing workflow processes the text metadata of diverse resource elements such as gene expression data sets, descriptions of radiology images, clinical trial reports, and PubMed article abstracts to annotate and index them with concepts from appropriate ontologies. Researchers can then search biomedical data sources using ontology concepts.	NCBO NCBO	Stanford University
OntoCAT	High level abstraction API (Java/REST/R) for interacting with o... High level abstraction API (Java/REST/R) for interacting with ontology resources including local ontology files in standard OWL and OBO formats (via OWL API) and public ontology repositories: EBI Ontology Lookup Service (OLS) and NCBO BioPortal.	Tomasz Adamus... Tomasz Adamusiak, Helen Parkinson, Natalja Kurbatova, Misha Kapushesky, Morris Swertz	EMBL-EBI, University of Groningen
OntoMaton	OntoMaton is a google spreadsheet application allowing for onto... OntoMaton is a google spreadsheet application allowing for ontology search and tagging directly within google spreadsheets. More information can be found here: https://github.com/ISA-tools/OntoMaton	ISA team ISA team	Oxford University
NCBO Annotator	A Web service that tags free text with ontology concepts. NCBO ... A Web service that tags free text with ontology concepts. NCBO uses these Web services to annotate resources in the NCBO Resource Index to create an ontology index of these resources. This Web service can be accessed through BioPortal or used directly in your software. Currently, the annotation workflow is based on syntactic concept recognition (using concept names and synonyms) and on a set of semantic expansion algorithms that leverage the semantics in ontologies (e.g., is_a relations). Our service methodology leverages ontologies to create annotations of raw text and returns them using semantic web standards.	NCBO NCBO	Stanford University

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