standards > terminology artifact > DOI:10.25504/FAIRsharing.ezwdhz


ready Phenotypic QualiTy Ontology

Abbreviation: PATO


General Information
PATO is an ontology of phenotypic qualities, intended for use in a number of applications, primarily phenotype annotation. This ontology can be used in conjunction with other ontologies such as GO or anatomical ontologies to refer to phenotypes.

Homepage https://github.com/pato-ontology/pato/

Countries that developed this resource United Kingdom , United States

Created in 2004

Taxonomic range

Knowledge Domains 




How to cite this record FAIRsharing.org: PATO; Phenotypic QualiTy Ontology; DOI: https://doi.org/10.25504/FAIRsharing.ezwdhz; Last edited: July 9, 2019, 10:34 a.m.; Last accessed: Dec 06 2019 11:16 p.m.


This record is maintained by gkoutos

Record updated: June 28, 2019, 4:38 p.m. by The FAIRsharing Team.

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Tools

    No tools defined


Schemas

No XSD schemas defined




Publications

Using ontologies to describe mouse phenotypes.

Gkoutos GV,Green EC,Mallon AM,Hancock JM,Davidson D
Genome Biol 2005

View Paper (PubMed) View Publication

Integrating phenotype ontologies across multiple species.

Mungall CJ,Gkoutos GV,Smith CL,Haendel MA,Lewis SE,Ashburner M
Genome Biol 2010

View Paper (PubMed) View Publication

PATO Ontology Display

View in BioPortal.


Disclaimer: This widget assumes the availability of the ontology resources in the NCBO BioPortal.

View in OBO Foundry.




Implementing Databases (10)
zfishbook
Zfishbook is a real-time database of transposon-labeled mutants in zebrafish. This resource provides services for any size of GBT mutagenesis projects on zebrafish to encourage collaboration in the research community.

PomBase
PomBase is a model organism database that provides organization of and access to scientific data for the fission yeast Schizosaccharomyces pombe. PomBase supports genomic sequence and features, genome-wide datasets and manual literature curation as well as providing structural and functional annotation and access to large-scale data sets.

Stem Cell Discovery Engine
Comparison system for cancer stem cell analysis

Neuroscience Information Framework (NIF)
NIF maintains the largest searchable collection of neuroscience data, the largest catalog of biomedical resources, and the largest ontology for neuroscience on the web.

The Zebrafish Information Network
The Zebrafish Information Network, ZFIN, serves as the primary community database resource for the laboratory use of zebrafish. We develop and support integrated zebrafish genetic, genomic, developmental and physiological information and link this information extensively to corresponding data in other model organism and human databases.

Open Targets
Open Targets is a data integration platform for access to and visualisation of potential drug targets associated with disease. Each drug target is linked to a disease using integrated genome-wide data from a broad range of data sources.

Planteome
A resource providing data on bioentities and their associated ontology terms for Plant Biology. The database provides access to ontology-based annotations of genes, phenotypes and germplasms from about 90 plant species. A number of internal and external ontologies are used to annotate the biological data available from this resource.

OBO Foundry
The Open Biological and Biomedical Ontology (OBO) Foundry is a collective of ontology developers that are committed to collaboration and adherence to shared principles. The mission of the OBO Foundry is to develop a family of interoperable ontologies that are both logically well-formed and scientifically accurate. To achieve this, OBO Foundry participants voluntarily adhere to and contribute to the development of an evolving set of principles including open use, collaborative development, non-overlapping and strictly-scoped content, and common syntax and relations, based on ontology models that work well, such as the Gene Ontology (GO). The OBO Foundry is overseen by an Operations Committee with Editorial, Technical and Outreach working groups.

RIKEN Arabidopsis Genome Encyclopedia II
RARGE II provides basic information about the Arabidopsis genome, such as information related to cDNA sequences and transposon insertion mutants. To create it, publicly available information for a total of 66,209 Arabidopsis mutant lines was used, including loss-of-function (RATM and TARAPPER) and gain-of-function (AtFOX and OsFOX) lines, as well as phenotype data gained through the mapping of descriptions onto Plant Ontology (PO) and Phenotypic Quality Ontology (PATO) terms.

LEAFDATA
The LEAFDATA resource collects information from primary research articles focusing on Arabidopsis leaf growth and development. The result section of selected papers is manually annotated and organized into distinct categories. Text fragments of the manuscripts are displayed with links to the original papers on PubMed.

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Implementing Policies

This record is not implemented by any policy.


Credit

Record Maintainer

  • This record is maintained by gkoutos

Funds

Maintains

Grant Number(s)

  • BG/G004358/1 (Biotechnology and Biological Sciences Research Council (BBSRC), UK)

  • HG000330 (National Human Genome Research Institute (NHGRI), NIH, United States)

  • U54 HG004028 (National Institutes of Health (NIH), Bethesda, MD, USA)