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Annotation of phenotypic diversity: decoupling data curation and ontology curation using Phenex
2014
Journal of Biomedical Semantics
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Results: We decoupled data annotation from ontology development by creating an Ontology Request Broker (ORB) within Phenex. ...
Phenoscape curators using Phenex have reported a smoother annotation workflow, with much reduced interruptions from ontology maintenance and file management issues. ...
Acknowledgments Early design work on the Phenex ORB was undertaken by Mtakai Ngara. This work has been supported by NSF collaborative grants DBI-1062404 and DBI-1062542.
Author details ...
doi:10.1186/2041-1480-5-45
pmid:25411634
pmcid:PMC4236444
fatcat:jm73jdhqxzbz7m73txajmnyrgy
Moving the mountain: analysis of the effort required to transform comparative anatomy into computable anatomy
2015
Database: The Journal of Biological Databases and Curation
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The workflow consists of: (i) data preparation, (ii) phenotype annotation, (iii) ontology development and (iv) curation team discussions and software development feedback. ...
Abstract The diverse phenotypes of living organisms have been described for centuries, and though they may be digitized, they are not readily available in a computable form. ...
Acknowledgements We thank Phenoscape collaborators for comments and advice that improved this work. ...
doi:10.1093/database/bav040
pmid:25972520
pmcid:PMC4429748
fatcat:2hzs6htrlfhqrdxiiywenhrxmq
Enabling Machine-Actionable Semantics For Comparative Analyses Of Trait Evolution
2017
Zenodo
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To accomplish this, the project will adapt key products and know-how developed by the Phenoscape project, including an integrative knowledgebase of ontology-linked phenotype data, metrics for quantifying ...
the semantic similarity of phenotype descriptions, and algorithms for synthesizing morphological data from [...] ...
OWL ontologies, ontology-annotated (using Phenex [40, 41] ) character matrix files, and gene phenotype annotations from model organism databases into a unified data model expressed in OWL (Web Ontology ...
doi:10.5281/zenodo.885538
fatcat:se2izcnlizdjrmqohjbrkd5qne