中国科学院机构知识库网格
Chinese Academy of Sciences Institutional Repositories Grid
FCGCNMDA: predicting miRNA-disease associations by applying fully connected graph convolutional networks

文献类型:期刊论文

作者Li, JS (Li, Jiashu)[ 1,2 ]; Li, ZW (Li, Zhengwei)[ 1,2,3 ]; Nie, R (Nie, Ru)[ 1,2 ]; You, ZH (You, Zhuhong)[ 4 ]; Bao, WZ (Bao, Wenzhang)[ 5 ]
刊名miRNA-disease association; Graph convolutional networks; Fully connected graph; Deep learning
出版日期2020
卷号295期号:5页码:1197-1209
ISSN号1617-4615
DOI10.1007/s00438-020-01693-7
英文摘要

Growing evidence indicates that the development and progression of multiple complex diseases are influenced by microRNA (miRNA). Identifying more miRNAs as biomarkers for clinical diagnosis, treatment and prognosis is vital to promote the development of bioinformatics and medicine. Considering that the traditional biological experimental methods are generally time-consuming and expensive, high-efficient computational methods are encouraged to uncover potential disease-related miRNAs. In this paper, FCGCNMDA is presented to predict latent miRNA-disease associations by utilizing fully connected graph convolutional networks. Specially, our method first constructs a fully connected graph in which edge weights represent correlation coefficient between any two pairs of miRNA-disease pair, and then feeds this fully connected graph along with miRNA-disease pairs feature matrix into a two-layer graph convolutional networks (GCN) for training. At last, we utilize the trained network to predict the scores for unknown miRNA-disease pairs. As a result, FCGCNMDA achieves AUC value of 92.85 +/- 0.71% and AUPRC value of 92.55% in HMDD v2.0 based on five-fold cross validation. Moreover, case studies on Lymphoma, Breast Neoplasms and Prostate Neoplasms shown that 98%, 98%, 98% of the top 50 selected miRNAs were validated by recent experimental evidence. From above results, we can deduce that FCGCNMDA can be regarded as reliable method for potential miRNA-disease associations prediction.

WOS记录号WOS:000537968500001
源URL[http://ir.xjipc.cas.cn/handle/365002/7402]  
专题新疆理化技术研究所_多语种信息技术研究室
作者单位1.Xuzhou Univ Technol, Sch Informat & Elect Engn, Xuzhou 221018, Jiangsu, Peoples R China
2.Chinese Acad Sci, Xinjiang Tech Inst Phys & Chem, Urumqi 830011, Peoples R China
3.KUNPAND Commun Kunshan Co Ltd, Suzhou 215300, Peoples R China
4.China Univ Min & Technol, Mine Digitizat Engn Res Ctr, Minist Educ, Xuzhou 221116, Jiangsu, Peoples R China
5.China Univ Min & Technol, Sch Comp Sci & Technol, Xuzhou 221116, Jiangsu, Peoples R China
推荐引用方式
GB/T 7714
Li, JS ,Li, ZW ,Nie, R ,et al. FCGCNMDA: predicting miRNA-disease associations by applying fully connected graph convolutional networks[J]. miRNA-disease association; Graph convolutional networks; Fully connected graph; Deep learning,2020,295(5):1197-1209.
APA Li, JS ,Li, ZW ,Nie, R ,You, ZH ,&Bao, WZ .(2020).FCGCNMDA: predicting miRNA-disease associations by applying fully connected graph convolutional networks.miRNA-disease association; Graph convolutional networks; Fully connected graph; Deep learning,295(5),1197-1209.
MLA Li, JS ,et al."FCGCNMDA: predicting miRNA-disease associations by applying fully connected graph convolutional networks".miRNA-disease association; Graph convolutional networks; Fully connected graph; Deep learning 295.5(2020):1197-1209.

入库方式: OAI收割

来源:新疆理化技术研究所

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