Standardization of assay representation in the Ontology for Biomedical Investigations.
-
Authors
-
-
Vita, Randi1
-
Zheng, Jie2
-
Jackson, Rebecca1, 3
-
Dooley, Damion4
-
Overton, James A1, 3
-
Miller, Mark A5
-
Berrios, Daniel C6
-
Scheuermann, Richard H1, 7, 8
-
He, Yongqun9
-
McGinty, Hande Küçük10
-
Brochhausen, Mathias11
-
Lin, Aisyah Yu12
-
Jain, Sagar B7
-
Chibucos, Marcus C13
-
Judkins, John14
-
Giglio, Michelle G13
-
Feng, Irene Y15
-
Burns, Gully16
-
Brush, Matthew H17
-
Peters, Bjoern1, 18
-
Stoeckert, Christian J Jr2
And 1 more
-
1
Center for Infectious Disease and Vaccine Research, La Jolla Institute for Immunology, 9420 Athena Circle, La Jolla, CA 92037, USA.
-
2
Department of Genetics and Institute for Biomedical Informatics, Perelman School of Medicine, University of Pennsylvania, 3400 Civic Center Blvd, Philadelphia, PA 19104, USA.
-
3
Knocean Inc, Toronto, 105 Quebec Ave, ON M2P 2T3, Canada.
,
(Canada)
-
4
Centre for Infectious Disease Genomics and One Health, Simon Fraser University, 8888 University Dr, Burnaby, BC V5A 1S6, Canada.
,
(Canada)
-
5
Institute for Biomedical Informatics, Perelman School of Medicine, University of Pennsylvania, 3400 Civic Center Blvd, Philadelphia, PA 19104, USA.
-
6
USRA/NASA Ames Research Center, Building N-260, Moffett Field, CA 94305, USA.
-
7
Department of Informatics, J. Craig Venter Institute, 4120 Capricorn Ln, La Jolla, CA 92037, USA.
-
8
Department of Pathology, University of California, 9500 Gilman Dr, San Diego, CA 92093, USA.
-
9
Center for Computational Medicine and Bioinformatics, University of Michigan Medical School, 1500 E Medical Center Dr, Ann Arbor, MI 48109, USA.
-
10
Department of Chemistry and Biochemistry, Ohio University, 1 Ohio University Drive, Athens, OH 45701, USA.
-
11
Translational Research Institute, University of Arkansas for Medical Sciences, 4301 W Markham St, Little Rock, AR 72205, USA.
-
12
National Center for Ontological Research, University at Buffalo, 126 Park Hall, Buffalo, NY 14260, USA.
-
13
Institute for Genome Sciences, University of Maryland School of Medicine, 655 W Baltimore St, Baltimore, MD 21201, USA.
-
14
Department of Biology, University of Pennsylvania, 3400 Civic Center Blvd, Philadelphia, PA 19104, USA.
-
15
Department of Psychology, University of Illinois Urbana-Champaign, 506 S. Wright St, Champaign, IL 61820, USA.
-
16
Chan Zuckerberg Initiative, 801 Jefferson Ave, Redwood City, CA 94062, USA.
-
17
Oregon Health and Science University, 3181 SW Sam Jackson Park Rd, Portland, OR 97239, USA.
-
18
Department of Medicine, Division of Infectious Diseases and Global Public Health, University of California, 9500 Gilman Drive, La Jolla, CA 92037, USA.
- Type
- Published Article
- Journal
-
Database
- Publisher
-
Oxford University Press
- Publication Date
-
Jul 08, 2021
- Volume
-
2021
- Identifiers
-
DOI: 10.1093/database/baab040
-
PMID: 34244718
- Source
-
Medline
- Language
-
English
- License
-
Unknown
Abstract
The Ontology for Biomedical Investigations (OBI) underwent a focused review of assay term annotations, logic and hierarchy with a goal to improve and standardize these terms. As a result, inconsistencies in W3C Web Ontology Language (OWL) expressions were identified and corrected, and additionally, standardized design patterns and a formalized template to maintain them were developed. We describe here this informative and productive process to describe the specific benefits and obstacles for OBI and the universal lessons for similar projects. © The Author(s) 2021. Published by Oxford University Press.
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
This record was last updated on 01/04/2022 and may not reflect the most current and accurate biomedical/scientific data available from NLM.
The corresponding record at NLM can be accessed at
https://www.ncbi.nlm.nih.gov/pubmed/34244718
Report this publication