RBMMMDA: predicting multiple types of disease-microRNA associations

Scientific Reports
Xing ChenQionghai Dai

Abstract

Accumulating evidences have shown that plenty of miRNAs play fundamental and important roles in various biological processes and the deregulations of miRNAs are associated with a broad range of human diseases. However, the mechanisms underlying the dysregulations of miRNAs still have not been fully understood yet. All the previous computational approaches can only predict binary associations between diseases and miRNAs. Predicting multiple types of disease-miRNA associations can further broaden our understanding about the molecular basis of diseases in the level of miRNAs. In this study, the model of Restricted Boltzmann machine for multiple types of miRNA-disease association prediction (RBMMMDA) was developed to predict four different types of miRNA-disease associations. Based on this model, we could obtain not only new miRNA-disease associations, but also corresponding association types. To our knowledge, RBMMMDA is the first model which could computationally infer association types of miRNA-disease pairs. Leave-one-out cross validation was implemented for RBMMMDA and the AUC of 0.8606 demonstrated the reliable and effective performance of RBMMMDA. In the case studies about lung cancer, breast cancer, and global prediction fo...Continue Reading

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Citations

Jun 28, 2016·Briefings in Bioinformatics·Xing ChenZhu-Hong You
Sep 17, 2016·BioMed Research International·Limin JiangQuan Zou
Sep 10, 2016·Scientific Reports·Ricardo C H Del RosarioBaltazar D Aguda
Oct 6, 2016·BioMed Research International·Jiawei LuoPingjian Ding
Oct 14, 2016·Scientific Reports·Daeyong Jin, Hyunju Lee
Feb 18, 2016·Scientific Reports·Xing ChenQionghai Dai
Oct 26, 2016·Scientific Reports·Changlong GuKeqin Li
Apr 20, 2017·RNA Biology·Xing ChenGui-Ying Yan
Mar 14, 2018·Journal of Cellular and Molecular Medicine·Xing ChenLi Huang
Sep 1, 2017·Journal of Cellular and Molecular Medicine·Xing ChenZheng-Wei Li
Jun 26, 2018·Bioinformatics·Xing ChenJian-Qiang Li
Oct 19, 2017·Briefings in Bioinformatics·Xing ChenZhu-Hong You
Jul 23, 2019·PLoS Computational Biology·Xing ChenJun Yin
Feb 9, 2017·Oncotarget·Jian-Qiang LiZhu-Hong You
Mar 9, 2018·Frontiers in Physiology·Xing ChenJian-Qiang Li
Dec 23, 2017·Journal of Cellular and Molecular Medicine·Xing ChenGui-Ying Yan
Apr 25, 2018·Molecular Genetics and Genomics : MGG·Li-Hong PengXing Chen
Jan 24, 2019·International Journal of Molecular Sciences·Chen ZhaoAleksander S Popel

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Methods Mentioned

BETA
interactions prediction

Software Mentioned

RBMMMDA
LOOCV
RLSMDA
jaRBM
RWRMDA

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