Phenotype Ontologies Traversing All The Organisms (POTATO) workshop aims to reconcile logical definitions across species. Workshop Report

Simple item page
cg.authorship.typesCGIAR and advanced research instituteen
cg.contributor.affiliationEuropean Bioinformatics Instituteen
cg.contributor.affiliationMonarch Initiativeen
cg.contributor.affiliationUniversity of North Carolinaen
cg.contributor.affiliationJackson Laboratory for Genomic Medicineen
cg.contributor.affiliationSanford Imageneticsen
cg.contributor.affiliationUniversity of Oregonen
cg.contributor.affiliationOregon State Universityen
cg.contributor.affiliationCalifornia Institute of Technologyen
cg.contributor.affiliationLawrence Berkeley National Laboratoryen
cg.contributor.affiliationBerlin Institute of Healthen
cg.contributor.affiliationEinstein Center Digital Futureen
cg.contributor.affiliationBioversity Internationalen
cg.contributor.affiliationMarquette Universityen
cg.contributor.affiliationMedical College of Wisconsin & Marquette Universityen
cg.contributor.affiliationUniversity of Cape Townen
cg.contributor.affiliationUniversity of Cambridgeen
cg.contributor.affiliationStowers Institute for Medical Researchen
cg.contributor.affiliationUniversity of Connecticuten
cg.contributor.affiliationCincinnati Children's Hospital Medical Centeren
cg.contributor.affiliationOregon Health & Science Universityen
cg.contributor.crpBig Data
cg.creator.identifierMarie-Angélique Laporte: 0000-0002-8461-9745
cg.identifier.doihttps://doi.org/10.5281/zenodo.2382757en
cg.identifier.urlhttps://zenodo.org/record/2382757#.XLRfx9hS-Umen
dc.contributor.authorMatentzoglu, N.en
dc.contributor.authorBalhoff, J.en
dc.contributor.authorBello, S.en
dc.contributor.authorBoerkoel, C.en
dc.contributor.authorBradford, Y.en
dc.contributor.authorCarmody, L.en
dc.contributor.authorCooper, Laurel D.en
dc.contributor.authorGrove, C.en
dc.contributor.authorHarris, N.en
dc.contributor.authorKöhler, S.en
dc.contributor.authorLaporte, Marie-Angéliqueen
dc.contributor.authorLaulederkind, S.en
dc.contributor.authorLee, R.en
dc.contributor.authorMazandu, G.en
dc.contributor.authorMcMurry, J.en
dc.contributor.authorMungall, C.en
dc.contributor.authorOsumi-Sutherland, D.en
dc.contributor.authorPilgrim, C.en
dc.contributor.authorRageth, K.en
dc.contributor.authorRobb, S.en
dc.contributor.authorRobinson, P.en
dc.contributor.authorSegerdell, E.en
dc.contributor.authorThessen, A.en
dc.contributor.authorVasilevsky, N.en
dc.contributor.authorZhang, X.en
dc.contributor.authorHaendel, M.en
dc.date.accessioned2019-04-16T14:35:07Zen
dc.date.available2019-04-16T14:35:07Zen
dc.identifier.urihttps://hdl.handle.net/10568/100816
dc.titlePhenotype Ontologies Traversing All The Organisms (POTATO) workshop aims to reconcile logical definitions across species. Workshop Reporten
dcterms.abstractLogical definitions, in particular those following the Entity-Quality approach, are increasingly used to drive automated classification of phenotypes and integrate phenotypes across species semantically. Over the years, the lack of consistent and widespread use of common standards resulted in conceptually equivalent or similar phenotypes with logically divergent definitions. Recently, pattern-based approaches such as Dead Simple Ontology Design Patterns (DOSDP) have emerged as a way to reconcile such divergent definitions on a large scale. To facilitate the widespread adoption of DOSDP-based phenotype ontology development and to organise the reconciliation process involving key model organism communities, we have established the Phenotype Ontologies Traversing All The Organisms (POTATO) Workshop Series. These workshops are part of the NIH-funded “Forums for Integrative Phenomics” conference award, which provide a venue for phenotype ontology developers and phenomics informaticians to align their goals and technical approaches. The first POTATO workshop, in August 2018, provided training in cutting-edge tools and techniques for developing and releasing ontologies using design patterns and automated imports. This workshop also featured collaborative exercises in reconciling divergent logical definitions drawn from major phenotype ontologies that resulted in a set of general recommendations for how to improve phenotype ontologies and their development as well as a set of reconciled definitions. As a result of the workshop, many of the attendees have joined a phenotype ontology reconciliation effort, aimed at developing and implementing common design patterns across a range of phenotype ontologies. We thus plan to hold additional POTATO workshops.en
dcterms.accessRightsOpen Access
dcterms.audienceScientistsen
dcterms.bibliographicCitationMatentzoglu, N.; Balhoff, J.; Bello, S.; Boerkoel, C.; Bradford, Y.; Carmody, L.; Cooper, L.; Grove, C.; Harris, N.; Köhler, S.; Laporte, M-A.; Laulederkind, S.; Lee, R.; Mazandu, G.; McMurry, J.; Mungall, C.; Osumi-Sutherland, D.; Pilgrim, C.; Rageth, K.; Robb, S.; Robinson, P.; Segerdell, E.; Thessen, A.; Vasilevsky, N.; Zhang, X.; Haendel, M. (2018) Phenotype Ontologies Traversing All The Organisms (POTATO) workshop aims to reconcile logical definitions across species. Workshop Report. 9 p.en
dcterms.extent9 p.en
dcterms.issued2018
dcterms.languageen
dcterms.licenseCC-BY-4.0
dcterms.subjectontologyen
dcterms.subjectphenotypesen
dcterms.subjectdata processingen
dcterms.typeReport

Files

Original bundle

Now showing 1 - 1 of 1
Thumbnail Image
Name:
Phenotype_Matentzoglu_2018.pdf
Size:
182.54 KB
Format:
Adobe Portable Document Format
Description:
Download

License bundle

Now showing 1 - 1 of 1
Thumbnail Image
Name:
license.txt
Size:
1.75 KB
Format:
Item-specific license agreed upon to submission
Description:
Download

Collections

Bioversity Reports
CGIAR BigData Reports