Title: The development of non-coding RNA ontology

Authors: Jingshan Huang; Karen Eilbeck; Barry Smith; Judith A. Blake; Dejing Dou; Weili Huang; Darren A. Natale; Alan Ruttenberg; Jun Huan; Michael T. Zimmermann; Guoqian Jiang; Yu Lin; Bin Wu; Harrison J. Strachan; Nisansa De Silva; Mohan Vamsi Kasukurthi; Vikash Kumar Jha; Yongqun He; Shaojie Zhang; Xiaowei Wang; Zixing Liu; Glen M. Borchert; Ming Tan

Addresses: School of Computing, University of South Alabama, Shelby Hall, Room 1123, 150 Jaguar Drive Mobile, AL 36688, USA ' Department of Biomedical Informatics, University of Utah School of Medicine, Salt Lake City, Utah, USA ' University at Buffalo - SUNY, Buffalo, New York 14260, USA ' Jackson Laboratory, Bar Harbor, Connecticut 04609, USA ' Computer and Information Science Department, University of Oregon, Eugene, Oregon 97403, USA ' Miracle Query, Inc., Eugene, Oregon 97405, USA ' Georgetown University Medical Center, Washington DC 20007, USA ' University at Buffalo - SUNY, Buffalo, New York 14260, USA ' Department of Electrical Engineering and Computer Science, University of Kansas, Lawrence, Kansas 66045, USA ' Division of Biomedical Statistics and Informatics, College of Medicine at Mayo Clinic, Rochester, Minnesota 55905, USA ' Division of Biomedical Statistics and Informatics, College of Medicine at Mayo Clinic, Rochester, Minnesota 55905, USA ' Data Coordination and Integration Center, University of Miami, Miami, Florida 33146, USA ' Endocrinology Department, Kunming Medical University, Kunming, Yunnan, 650032 China ' School of Computing, University of South Alabama, Mobile, Alabama 36688, USA ' Computer and Information Science, University of Oregon, Eugene, Oregon 97403, USA ' School of Computing, University of South Alabama, Mobile, Alabama 36688, USA ' School of Computing, University of South Alabama, Mobile, Alabama 36688, USA ' Lab Animal Medicine, Microbiology, Immunology and Bioinformatics, University of Michigan, Ann Arbor, Michigan 48109, USA ' Department of Computer Science, University of Central Florida, Orlando, Florida 32816, USA ' Cancer Biology, Washington University in St. Louis, St. Louis, Missouri 63130, USA ' Mitchell Cancer Institute, University of South Alabama, Mobile, Alabama 36604, USA ' Department of Biology, University of South Alabama, Mobile, Alabama 36688, USA ' Mitchell Cancer Institute, University of South Alabama, Mobile, Alabama 36604, USA

Abstract: Identification of non-coding RNAs (ncRNAs) has been significantly improved over the past decade. On the other hand, semantic annotation of ncRNA data is facing critical challenges due to the lack of a comprehensive ontology to serve as common data elements and data exchange standards in the field. We developed the Non-Coding RNA Ontology (NCRO) to handle this situation. By providing a formally defined ncRNA controlled vocabulary, the NCRO aims to fill a specific and highly needed niche in semantic annotation of large amounts of ncRNA biological and clinical data.

Keywords: non-coding RNA; ncRNA; bio-ontologies; domain ontology; reference ontology; ontology development; semantic data annotation; bioinformatics.

DOI: 10.1504/IJDMB.2016.077072

International Journal of Data Mining and Bioinformatics, 2016 Vol.15 No.3, pp.214 - 232

Received: 15 Mar 2016
Accepted: 15 Mar 2016
Published online: 20 Jun 2016 *

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