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Constructing lncRNA functional similarity network based on lncRNA-disease associations and disease semantic similarity
Chen, Xing1,2; Yan, Chenggang Clarence3; Luo, Cai3; Ji, Wen4; Zhang, Yongdong5; Dai, Qionghai3
2015-06-10
Source PublicationSCIENTIFIC REPORTS
ISSN2045-2322
Volume5Pages:12
AbstractIncreasing evidence has indicated that plenty of lncRNAs play important roles in many critical biological processes. Developing powerful computational models to construct lncRNA functional similarity network based on heterogeneous biological datasets is one of the most important and popular topics in the fields of both lncRNAs and complex diseases. Functional similarity network consturction could benefit the model development for both lncRNA function inference and lncRNA-disease association identification. However, little effort has been attempted to analysis and calculate lncRNA functional similarity on a large scale. In this study, based on the assumption that functionally similar lncRNAs tend to be associated with similar diseases, we developed two novel lncRNA functional similarity calculation models (LNCSIM). LNCSIM was evaluated by introducing similarity scores into the model of Laplacian Regularized Least Squares for LncRNA-Disease Association (LRLSLDA) for lncRNA-disease association prediction. As a result, new predictive models improved the performance of LRLSLDA in the leave-one-out cross validation of various known lncRNA-disease associations datasets. Furthermore, some of the predictive results for colorectal cancer and lung cancer were verified by independent biological experimental studies. It is anticipated that LNCSIM could be a useful and important biological tool for human disease diagnosis, treatment, and prevention.
DOI10.1038/srep11338
Language英语
Funding ProjectNational Natural Science of Foundation of China[11301517] ; National Natural Science of Foundation of China[61472203] ; National Natural Science of Foundation of China[61327902] ; National Center for Mathematics and Interdisciplinary Sciences, CAS
WOS Research AreaScience & Technology - Other Topics
WOS SubjectMultidisciplinary Sciences
WOS IDWOS:000356093500001
PublisherNATURE PUBLISHING GROUP
Citation statistics
Cited Times:76[WOS]   [WOS Record]     [Related Records in WOS]
Document Type期刊论文
Identifierhttp://ir.amss.ac.cn/handle/2S8OKBNM/19952
Collection中国科学院数学与系统科学研究院
Affiliation1.Chinese Acad Sci, Natl Ctr Math & Interdisciplinary Sci, Beijing 100190, Peoples R China
2.Chinese Acad Sci, Acad Math & Syst Sci, Beijing 100190, Peoples R China
3.Tsinghua Univ, Dept Automat, Beijing 100084, Peoples R China
4.Chinese Acad Sci, Inst Comp Technol, Beijing 100190, Peoples R China
5.Chinese Acad Sci, Inst Comp Technol, Key Lab Intelligent Informat Proc, Beijing 100190, Peoples R China
Recommended Citation
GB/T 7714
Chen, Xing,Yan, Chenggang Clarence,Luo, Cai,et al. Constructing lncRNA functional similarity network based on lncRNA-disease associations and disease semantic similarity[J]. SCIENTIFIC REPORTS,2015,5:12.
APA Chen, Xing,Yan, Chenggang Clarence,Luo, Cai,Ji, Wen,Zhang, Yongdong,&Dai, Qionghai.(2015).Constructing lncRNA functional similarity network based on lncRNA-disease associations and disease semantic similarity.SCIENTIFIC REPORTS,5,12.
MLA Chen, Xing,et al."Constructing lncRNA functional similarity network based on lncRNA-disease associations and disease semantic similarity".SCIENTIFIC REPORTS 5(2015):12.
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