A domain ontology for the Non-Coding RNA field

Jingshan Huang; Karen Eilbeck; Judith A. Blake; Dejing Dou; Darren A. Natale; Alan Ruttenberg; Barry Smith; Michael T. Zimmermann; Guoqian Jiang; Yu Lin; Bin Wu; Yongqun He; Shaojie Zhang; Xiaowei Wang; He Zhang; Zixing Liu; Ming Tan

doi:10.1109/BIBM.2015.7359755

A domain ontology for the Non-Coding RNA field

Jingshan Huang, Karen Eilbeck, Judith A. Blake, Dejing Dou, Darren A. Natale, Alan Ruttenberg, Barry Smith, Michael T. Zimmermann, Guoqian Jiang, Yu Lin, Bin Wu, Yongqun He, Shaojie Zhang, Xiaowei Wang, He Zhang, Zixing Liu, Ming Tan

Division of Cancer Biology

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

1 Scopus citations

Abstract

Identification of non-coding RNAs (ncRNAs) has been significantly enhanced due to the rapid advancement in sequencing technologies. On the other hand, semantic annotation of ncRNA data lag behind their identification, and there is a great need to effectively integrate discovery from relevant communities. To this end, the Non-Coding RNA Ontology (NCRO) is being developed to provide a precisely defined ncRNA controlled vocabulary, which can fill a specific and highly needed niche in unification of ncRNA biology.

Original language	English
Title of host publication	Proceedings - 2015 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2015
Editors	lng. Matthieu Schapranow, Jiayu Zhou, Xiaohua Tony Hu, Bin Ma, Sanguthevar Rajasekaran, Satoru Miyano, Illhoi Yoo, Brian Pierce, Amarda Shehu, Vijay K. Gombar, Brian Chen, Vinay Pai, Jun Huan
Publisher	Institute of Electrical and Electronics Engineers Inc.
Pages	621-624
Number of pages	4
ISBN (Electronic)	9781467367981
DOIs	https://doi.org/10.1109/BIBM.2015.7359755
State	Published - Dec 16 2015
Event	IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2015 - Washington, United States Duration: Nov 9 2015 → Nov 12 2015

Publication series

Name	Proceedings - 2015 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2015

Conference

Conference	IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2015
Country/Territory	United States
City	Washington
Period	11/9/15 → 11/12/15

Keywords

biological and biomedical ontologies
domain ontology
non-coding RNA
ontology development
semantic data annotation and integration

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10.1109/BIBM.2015.7359755

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Huang, J., Eilbeck, K., Blake, J. A., Dou, D., Natale, D. A., Ruttenberg, A., Smith, B., Zimmermann, M. T., Jiang, G., Lin, Y., Wu, B., He, Y., Zhang, S., Wang, X., Zhang, H., Liu, Z., & Tan, M. (2015). A domain ontology for the Non-Coding RNA field. In L. M. Schapranow, J. Zhou, X. T. Hu, B. Ma, S. Rajasekaran, S. Miyano, I. Yoo, B. Pierce, A. Shehu, V. K. Gombar, B. Chen, V. Pai, & J. Huan (Eds.), Proceedings - 2015 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2015 (pp. 621-624). Article 7359755 (Proceedings - 2015 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2015). Institute of Electrical and Electronics Engineers Inc.. https://doi.org/10.1109/BIBM.2015.7359755

Huang, Jingshan ; Eilbeck, Karen ; Blake, Judith A. et al. / A domain ontology for the Non-Coding RNA field. Proceedings - 2015 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2015. editor / lng. Matthieu Schapranow ; Jiayu Zhou ; Xiaohua Tony Hu ; Bin Ma ; Sanguthevar Rajasekaran ; Satoru Miyano ; Illhoi Yoo ; Brian Pierce ; Amarda Shehu ; Vijay K. Gombar ; Brian Chen ; Vinay Pai ; Jun Huan. Institute of Electrical and Electronics Engineers Inc., 2015. pp. 621-624 (Proceedings - 2015 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2015).

@inproceedings{4abd6d272ef643cc98eb5838ae8c7098,

title = "A domain ontology for the Non-Coding RNA field",

abstract = "Identification of non-coding RNAs (ncRNAs) has been significantly enhanced due to the rapid advancement in sequencing technologies. On the other hand, semantic annotation of ncRNA data lag behind their identification, and there is a great need to effectively integrate discovery from relevant communities. To this end, the Non-Coding RNA Ontology (NCRO) is being developed to provide a precisely defined ncRNA controlled vocabulary, which can fill a specific and highly needed niche in unification of ncRNA biology.",

keywords = "biological and biomedical ontologies, domain ontology, non-coding RNA, ontology development, semantic data annotation and integration",

author = "Jingshan Huang and Karen Eilbeck and Blake, {Judith A.} and Dejing Dou and Natale, {Darren A.} and Alan Ruttenberg and Barry Smith and Zimmermann, {Michael T.} and Guoqian Jiang and Yu Lin and Bin Wu and Yongqun He and Shaojie Zhang and Xiaowei Wang and He Zhang and Zixing Liu and Ming Tan",

note = "Funding Information: Research reported in this paper was partially supported by the National Cancer Institute (NCI) of the National Institutes of Health (NIH), under the Award Number UOICA180982. The views contained in this paper are solely the responsibility of the authors and do not represent the official views, either expressed or implied, of the NIH or the U. S. Government. Publisher Copyright: {\textcopyright} 2015 IEEE.; IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2015 ; Conference date: 09-11-2015 Through 12-11-2015",

year = "2015",

month = dec,

day = "16",

doi = "10.1109/BIBM.2015.7359755",

language = "English",

series = "Proceedings - 2015 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2015",

publisher = "Institute of Electrical and Electronics Engineers Inc.",

pages = "621--624",

editor = "Schapranow, {lng. Matthieu} and Jiayu Zhou and Hu, {Xiaohua Tony} and Bin Ma and Sanguthevar Rajasekaran and Satoru Miyano and Illhoi Yoo and Brian Pierce and Amarda Shehu and Gombar, {Vijay K.} and Brian Chen and Vinay Pai and Jun Huan",

booktitle = "Proceedings - 2015 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2015",

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Huang, J, Eilbeck, K, Blake, JA, Dou, D, Natale, DA, Ruttenberg, A, Smith, B, Zimmermann, MT, Jiang, G, Lin, Y, Wu, B, He, Y, Zhang, S, Wang, X, Zhang, H, Liu, Z & Tan, M 2015, A domain ontology for the Non-Coding RNA field. in LM Schapranow, J Zhou, XT Hu, B Ma, S Rajasekaran, S Miyano, I Yoo, B Pierce, A Shehu, VK Gombar, B Chen, V Pai & J Huan (eds), Proceedings - 2015 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2015., 7359755, Proceedings - 2015 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2015, Institute of Electrical and Electronics Engineers Inc., pp. 621-624, IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2015, Washington, United States, 11/9/15. https://doi.org/10.1109/BIBM.2015.7359755

A domain ontology for the Non-Coding RNA field. / Huang, Jingshan; Eilbeck, Karen; Blake, Judith A. et al.
Proceedings - 2015 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2015. ed. / lng. Matthieu Schapranow; Jiayu Zhou; Xiaohua Tony Hu; Bin Ma; Sanguthevar Rajasekaran; Satoru Miyano; Illhoi Yoo; Brian Pierce; Amarda Shehu; Vijay K. Gombar; Brian Chen; Vinay Pai; Jun Huan. Institute of Electrical and Electronics Engineers Inc., 2015. p. 621-624 7359755 (Proceedings - 2015 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2015).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

TY - GEN

T1 - A domain ontology for the Non-Coding RNA field

AU - Huang, Jingshan

AU - Eilbeck, Karen

AU - Blake, Judith A.

AU - Dou, Dejing

AU - Natale, Darren A.

AU - Ruttenberg, Alan

AU - Smith, Barry

AU - Zimmermann, Michael T.

AU - Jiang, Guoqian

AU - Lin, Yu

AU - Wu, Bin

AU - He, Yongqun

AU - Zhang, Shaojie

AU - Wang, Xiaowei

AU - Zhang, He

AU - Liu, Zixing

AU - Tan, Ming

N1 - Funding Information: Research reported in this paper was partially supported by the National Cancer Institute (NCI) of the National Institutes of Health (NIH), under the Award Number UOICA180982. The views contained in this paper are solely the responsibility of the authors and do not represent the official views, either expressed or implied, of the NIH or the U. S. Government. Publisher Copyright: © 2015 IEEE.

PY - 2015/12/16

Y1 - 2015/12/16

N2 - Identification of non-coding RNAs (ncRNAs) has been significantly enhanced due to the rapid advancement in sequencing technologies. On the other hand, semantic annotation of ncRNA data lag behind their identification, and there is a great need to effectively integrate discovery from relevant communities. To this end, the Non-Coding RNA Ontology (NCRO) is being developed to provide a precisely defined ncRNA controlled vocabulary, which can fill a specific and highly needed niche in unification of ncRNA biology.

AB - Identification of non-coding RNAs (ncRNAs) has been significantly enhanced due to the rapid advancement in sequencing technologies. On the other hand, semantic annotation of ncRNA data lag behind their identification, and there is a great need to effectively integrate discovery from relevant communities. To this end, the Non-Coding RNA Ontology (NCRO) is being developed to provide a precisely defined ncRNA controlled vocabulary, which can fill a specific and highly needed niche in unification of ncRNA biology.

KW - biological and biomedical ontologies

KW - domain ontology

KW - non-coding RNA

KW - ontology development

KW - semantic data annotation and integration

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U2 - 10.1109/BIBM.2015.7359755

DO - 10.1109/BIBM.2015.7359755

M3 - Conference contribution

AN - SCOPUS:84962348997

T3 - Proceedings - 2015 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2015

SP - 621

EP - 624

BT - Proceedings - 2015 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2015

A2 - Schapranow, lng. Matthieu

A2 - Zhou, Jiayu

A2 - Hu, Xiaohua Tony

A2 - Ma, Bin

A2 - Rajasekaran, Sanguthevar

A2 - Miyano, Satoru

A2 - Yoo, Illhoi

A2 - Pierce, Brian

A2 - Shehu, Amarda

A2 - Gombar, Vijay K.

A2 - Chen, Brian

A2 - Pai, Vinay

A2 - Huan, Jun

PB - Institute of Electrical and Electronics Engineers Inc.

T2 - IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2015

Y2 - 9 November 2015 through 12 November 2015

ER -

Huang J, Eilbeck K, Blake JA, Dou D, Natale DA, Ruttenberg A et al. A domain ontology for the Non-Coding RNA field. In Schapranow LM, Zhou J, Hu XT, Ma B, Rajasekaran S, Miyano S, Yoo I, Pierce B, Shehu A, Gombar VK, Chen B, Pai V, Huan J, editors, Proceedings - 2015 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2015. Institute of Electrical and Electronics Engineers Inc. 2015. p. 621-624. 7359755. (Proceedings - 2015 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2015). doi: 10.1109/BIBM.2015.7359755

A domain ontology for the Non-Coding RNA field

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