MISIM v2.0: a web server for inferring microRNA functional similarity based on microRNA-disease associations

MicroRNAs (miRNAs) are one class of important small non-coding RNA molecules and play critical roles in health and disease. Therefore, it is important and necessary to evaluate the functional relationship of miRNAs and then predict novel miRNA-disease associations. For this purpose, here we develope...

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Detalles Bibliográficos
Autores principales: Li, Jianwei, Zhang, Shan, Wan, Yanping, Zhao, Yingshu, Shi, Jiangcheng, Zhou, Yuan, Cui, Qinghua
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2019
Materias:
Web Server Issue
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6602518/
https://www.ncbi.nlm.nih.gov/pubmed/31069374
http://dx.doi.org/10.1093/nar/gkz328
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author Li, Jianwei
Zhang, Shan
Wan, Yanping
Zhao, Yingshu
Shi, Jiangcheng
Zhou, Yuan
Cui, Qinghua
author_facet Li, Jianwei
Zhang, Shan
Wan, Yanping
Zhao, Yingshu
Shi, Jiangcheng
Zhou, Yuan
Cui, Qinghua
author_sort Li, Jianwei
collection PubMed
description MicroRNAs (miRNAs) are one class of important small non-coding RNA molecules and play critical roles in health and disease. Therefore, it is important and necessary to evaluate the functional relationship of miRNAs and then predict novel miRNA-disease associations. For this purpose, here we developed the updated web server MISIM (miRNA similarity) v2.0. Besides a 3-fold increase in data content compared with MISIM v1.0, MISIM v2.0 improved the original MISIM algorithm by implementing both positive and negative miRNA-disease associations. That is, the MISIM v2.0 scores could be positive or negative, whereas MISIM v1.0 only produced positive scores. Moreover, MISIM v2.0 achieved an algorithm for novel miRNA-disease prediction based on MISIM v2.0 scores. Finally, MISIM v2.0 provided network visualization and functional enrichment analysis for functionally paired miRNAs. The MISIM v2.0 web server is freely accessible at http://www.lirmed.com/misim/.
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spelling pubmed-66025182019-07-05 MISIM v2.0: a web server for inferring microRNA functional similarity based on microRNA-disease associations Li, Jianwei Zhang, Shan Wan, Yanping Zhao, Yingshu Shi, Jiangcheng Zhou, Yuan Cui, Qinghua Nucleic Acids Res Web Server Issue MicroRNAs (miRNAs) are one class of important small non-coding RNA molecules and play critical roles in health and disease. Therefore, it is important and necessary to evaluate the functional relationship of miRNAs and then predict novel miRNA-disease associations. For this purpose, here we developed the updated web server MISIM (miRNA similarity) v2.0. Besides a 3-fold increase in data content compared with MISIM v1.0, MISIM v2.0 improved the original MISIM algorithm by implementing both positive and negative miRNA-disease associations. That is, the MISIM v2.0 scores could be positive or negative, whereas MISIM v1.0 only produced positive scores. Moreover, MISIM v2.0 achieved an algorithm for novel miRNA-disease prediction based on MISIM v2.0 scores. Finally, MISIM v2.0 provided network visualization and functional enrichment analysis for functionally paired miRNAs. The MISIM v2.0 web server is freely accessible at http://www.lirmed.com/misim/. Oxford University Press 2019-07-02 2019-05-09 /pmc/articles/PMC6602518/ /pubmed/31069374 http://dx.doi.org/10.1093/nar/gkz328 Text en © The Author(s) 2019. Published by Oxford University Press on behalf of Nucleic Acids Research. http://creativecommons.org/licenses/by/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Web Server Issue
Li, Jianwei
Zhang, Shan
Wan, Yanping
Zhao, Yingshu
Shi, Jiangcheng
Zhou, Yuan
Cui, Qinghua
MISIM v2.0: a web server for inferring microRNA functional similarity based on microRNA-disease associations
title MISIM v2.0: a web server for inferring microRNA functional similarity based on microRNA-disease associations
title_full MISIM v2.0: a web server for inferring microRNA functional similarity based on microRNA-disease associations
title_fullStr MISIM v2.0: a web server for inferring microRNA functional similarity based on microRNA-disease associations
title_full_unstemmed MISIM v2.0: a web server for inferring microRNA functional similarity based on microRNA-disease associations
title_short MISIM v2.0: a web server for inferring microRNA functional similarity based on microRNA-disease associations
title_sort misim v2.0: a web server for inferring microrna functional similarity based on microrna-disease associations
topic Web Server Issue
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6602518/
https://www.ncbi.nlm.nih.gov/pubmed/31069374
http://dx.doi.org/10.1093/nar/gkz328
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