A new system for human microRNA functional evaluation and network

Jiachun Han; Jiang Shu; Juan Cui

doi:10.1109/BIBM.2016.7822531

A new system for human microRNA functional evaluation and network

Jiachun Han, Jiang Shu, Juan Cui

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

Abstract

MicroRNAs are functionally important non-coding RNAs that silence host genes via destabilizing the mRNAs or preventing the translation. Given the far-reaching implication of microRNA regulation in human health, novel bioinformatics tools are desired to facilitate the mechanistic understanding of microRNA mediated gene regulation and its regulatory roles in human disease development. Most state-of-the-art computational methods focus on the functional inference through identifying microRNA targets and none has comprehensively investigated the functional similarity among microRNAs. Here we present a new method to quantitatively measure the functional relevance among microRNAs that is solely based on the Gene Ontology and integrated functional annotation data from public pathways and PFam gene databases. In this study, we further demonstrated the use of the derived microRNA pairwise similarities to investigate the cooperative microRNA modules and construct the genome scale microRNA mediated gene network in human. The complete results and the similarity assessment system can be freely accessed at (http://sbbi.unl.edu/microRNASim)

Original language	English (US)
Title of host publication	Proceedings - 2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016
Editors	Kevin Burrage, Qian Zhu, Yunlong Liu, Tianhai Tian, Yadong Wang, Xiaohua Tony Hu, Qinghua Jiang, Jiangning Song, Shinichi Morishita, Kevin Burrage, Guohua Wang
Publisher	Institute of Electrical and Electronics Engineers Inc.
Pages	278-283
Number of pages	6
ISBN (Electronic)	9781509016105
DOIs	https://doi.org/10.1109/BIBM.2016.7822531
State	Published - Jan 17 2017
Event	2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016 - Shenzhen, China Duration: Dec 15 2016 → Dec 18 2016

Publication series

Name	Proceedings - 2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016

Other

Other	2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016
Country/Territory	China
City	Shenzhen
Period	12/15/16 → 12/18/16

Keywords

Functional similarity
Gene Ontology
Gene regulation network
MicroRNA
Semantic Similarity

ASJC Scopus subject areas

Genetics
Medicine (miscellaneous)
Genetics(clinical)
Biochemistry, medical
Biochemistry
Molecular Medicine
Health Informatics

Access to Document

10.1109/BIBM.2016.7822531

Cite this

Han, J., Shu, J., & Cui, J. (2017). A new system for human microRNA functional evaluation and network. In K. Burrage, Q. Zhu, Y. Liu, T. Tian, Y. Wang, X. T. Hu, Q. Jiang, J. Song, S. Morishita, K. Burrage, & G. Wang (Eds.), Proceedings - 2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016 (pp. 278-283). Article 7822531 (Proceedings - 2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016). Institute of Electrical and Electronics Engineers Inc.. https://doi.org/10.1109/BIBM.2016.7822531

A new system for human microRNA functional evaluation and network. / Han, Jiachun; Shu, Jiang; Cui, Juan.
Proceedings - 2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016. ed. / Kevin Burrage; Qian Zhu; Yunlong Liu; Tianhai Tian; Yadong Wang; Xiaohua Tony Hu; Qinghua Jiang; Jiangning Song; Shinichi Morishita; Kevin Burrage; Guohua Wang. Institute of Electrical and Electronics Engineers Inc., 2017. p. 278-283 7822531 (Proceedings - 2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016).

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

Han, J, Shu, J & Cui, J 2017, A new system for human microRNA functional evaluation and network. in K Burrage, Q Zhu, Y Liu, T Tian, Y Wang, XT Hu, Q Jiang, J Song, S Morishita, K Burrage & G Wang (eds), Proceedings - 2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016., 7822531, Proceedings - 2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016, Institute of Electrical and Electronics Engineers Inc., pp. 278-283, 2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016, Shenzhen, China, 12/15/16. https://doi.org/10.1109/BIBM.2016.7822531

Han J, Shu J, Cui J. A new system for human microRNA functional evaluation and network. In Burrage K, Zhu Q, Liu Y, Tian T, Wang Y, Hu XT, Jiang Q, Song J, Morishita S, Burrage K, Wang G, editors, Proceedings - 2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016. Institute of Electrical and Electronics Engineers Inc. 2017. p. 278-283. 7822531. (Proceedings - 2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016). doi: 10.1109/BIBM.2016.7822531

Han, Jiachun ; Shu, Jiang ; Cui, Juan. / A new system for human microRNA functional evaluation and network. Proceedings - 2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016. editor / Kevin Burrage ; Qian Zhu ; Yunlong Liu ; Tianhai Tian ; Yadong Wang ; Xiaohua Tony Hu ; Qinghua Jiang ; Jiangning Song ; Shinichi Morishita ; Kevin Burrage ; Guohua Wang. Institute of Electrical and Electronics Engineers Inc., 2017. pp. 278-283 (Proceedings - 2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016).

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N2 - MicroRNAs are functionally important non-coding RNAs that silence host genes via destabilizing the mRNAs or preventing the translation. Given the far-reaching implication of microRNA regulation in human health, novel bioinformatics tools are desired to facilitate the mechanistic understanding of microRNA mediated gene regulation and its regulatory roles in human disease development. Most state-of-the-art computational methods focus on the functional inference through identifying microRNA targets and none has comprehensively investigated the functional similarity among microRNAs. Here we present a new method to quantitatively measure the functional relevance among microRNAs that is solely based on the Gene Ontology and integrated functional annotation data from public pathways and PFam gene databases. In this study, we further demonstrated the use of the derived microRNA pairwise similarities to investigate the cooperative microRNA modules and construct the genome scale microRNA mediated gene network in human. The complete results and the similarity assessment system can be freely accessed at (http://sbbi.unl.edu/microRNASim)

AB - MicroRNAs are functionally important non-coding RNAs that silence host genes via destabilizing the mRNAs or preventing the translation. Given the far-reaching implication of microRNA regulation in human health, novel bioinformatics tools are desired to facilitate the mechanistic understanding of microRNA mediated gene regulation and its regulatory roles in human disease development. Most state-of-the-art computational methods focus on the functional inference through identifying microRNA targets and none has comprehensively investigated the functional similarity among microRNAs. Here we present a new method to quantitatively measure the functional relevance among microRNAs that is solely based on the Gene Ontology and integrated functional annotation data from public pathways and PFam gene databases. In this study, we further demonstrated the use of the derived microRNA pairwise similarities to investigate the cooperative microRNA modules and construct the genome scale microRNA mediated gene network in human. The complete results and the similarity assessment system can be freely accessed at (http://sbbi.unl.edu/microRNASim)

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A new system for human microRNA functional evaluation and network

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Keywords

ASJC Scopus subject areas

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