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PhenoGO

PhenoGO is a computed database designed for high throughput mining that provides phenotypic and experimental context, such as the cell type, disease, tissue and organ to existing annotations between gene products and Gene Ontology (GO) terms as specified in the Gene Ontology Annotations (GOA) for multiple model organisms. For example of mined derivative, see Discovery of Protein Interaction Networks Shared by Diseases. Pac Symp Biocomp 12:76-87(2007) Phenotypic and Experimental (P&E) contexts to identifiers are computationally mapped to general biological ontologies, including: the Cell Ontology (CO), phenotypes from the Unified Medical Language System (UMLS), species from Taxonomy of the National Center for Biotechnology Information (NCBI) taxonomy, specialized ontologies such as Mammalian Phenotype Ontology (MP) and Mouse Anatomy (MA).

URL: http://www.phenogo.org

Resource ID: nlx_152722     Resource Type: Resource     Version: Latest Version

Synonyms

PhenoGO

Resource PubMed IDs

PMID: 19208196, PMID: 19208196, PMID: 21347135

Comment

<?xml version="1.0" encoding="UTF-8"?>
<disco xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" format="discoToNifRegistry.xsd" version="1.0" version-date="2009-07-30">
:<resource blueprint="true" disco_id="229" full_name="PhenoGO adds phenotypic contextual information to existing associations between gene products and Gene Ontology (GO) terms as specified in GO Annotations (GOA). PhenoGO utilizes an existing Natural Language Processing (NLP) system, called BioMedLEE, an existing knowledge-based phenotype organizer system (PhenOS) in conjunction with MeSH indexing and established biomedical ontologies. The system also encodes the context to identifiers that are associated in different biomedical ontologies, including the UMLS, Cell Ontology, Mouse Anatomy, NCBI taxonomy, GO, and Mammalian Phenotype Ontology. In addition, PhenoGO was evaluated for coding of anatomical and cellular information and assigning the coded phenotypes to the correct GOA; results obtained show that PhenoGO has a precision of 91 and recall of 92, demonstrating that the PhenoGO NLP system can accurately encode a large number of anatomical and cellular ontologies to GO annotations. The PhenoGO Database may be accessed at www.phenogo.org." last-discoed="2009-08-29" nif_id="new" short_name="PhenoGO" url="http://www.phenogo.org">
:<parent_organization full_name="MAGNet" />
:<admin_contact email="" name="Yves Lussier and Carol Friedman are the principal investigators. The programmers are Jianrong Li, Lee Sam, and Tara Borlawsky" phone="" />
:<comment type="desc:Version_Information" />
:<comment type="desc:version_information" />
:<comment type="desc:keywords">Phenotypic integration, computational phenotypes</comment>
:<keyword type="license" value="n/a" />
:<keyword type="release_date" value="Feb 2006" />
:<keyword type="version" value="Version 2" />
:<keyword ont_term_id="Natural_Language_Processing" ont_url="http://bioontology.org/ontologies/BiomedicalResourceOntology.owl" ontology="BRO" type="data_type" value="Natural_Language_Processing" />
:</resource>
</disco>

Resource Status

Last checked up;

Additional Resource Types

database

Supercategory

Resource

Original Submitter

Anonymous

Version Status

Curated

Submitted On

12:00am October 19, 2010

Originated From

SciCrunch

Changes from Previous Version

First Version

Version 1

Created 4 years ago by Anonymous