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IRWRLDA: improved random walk with restart for lncRNA-disease association prediction
Chen, Xing1; You, Zhu-Hong2; Yan, Gui-Ying3,4; Gong, Dun-Wei1
2016-09-06
Source PublicationONCOTARGET
ISSN1949-2553
Volume7Issue:36Pages:57919-57931
AbstractIn recent years, accumulating evidences have shown that the dysregulations of lncRNAs are associated with a wide range of human diseases. It is necessary and feasible to analyze known lncRNA-disease associations, predict potential lncRNA-disease associations, and provide the most possible lncRNA-disease pairs for experimental validation. Considering the limitations of traditional Random Walk with Restart (RWR), the model of Improved Random Walk with Restart for LncRNA-Disease Association prediction (IRWRLDA) was developed to predict novel lncRNA-disease associations by integrating known lncRNA-disease associations, disease semantic similarity, and various lncRNA similarity measures. The novelty of IRWRLDA lies in the incorporation of lncRNA expression similarity and disease semantic similarity to set the initial probability vector of the RWR. Therefore, IRWRLDA could be applied to diseases without any known related lncRNAs. IRWRLDA significantly improved previous classical models with reliable AUCs of 0.7242 and 0.7872 in two known lncRNA-disease association datasets downloaded from the lncRNA-Disease database, respectively. Further case studies of colon cancer and leukemia were implemented for IRWRLDA and 60% of lncRNAs in the top 10 prediction lists have been confirmed by recent experimental reports.
KeywordlncRNAs disease cancer random walk with restart
DOI10.18632/oncotarget.11141
Language英语
Funding ProjectNational Natural Science Foundation of China[11301517] ; National Natural Science Foundation of China[61572506] ; National Natural Science Foundation of China[11371355]
WOS Research AreaOncology ; Cell Biology
WOS SubjectOncology ; Cell Biology
WOS IDWOS:000387153200036
PublisherIMPACT JOURNALS LLC
Citation statistics
Document Type期刊论文
Identifierhttp://ir.amss.ac.cn/handle/2S8OKBNM/24066
Collection应用数学研究所
Corresponding AuthorChen, Xing; You, Zhu-Hong
Affiliation1.China Univ Min & Technol, Sch Informat & Elect Engn, Xuzhou 221116, Peoples R China
2.China Univ Min & Technol, Sch Comp Sci & Technol, Xuzhou 221116, Peoples R China
3.Chinese Acad Sci, Acad Math & Syst Sci, Beijing 100190, Peoples R China
4.Chinese Acad Sci, Natl Ctr Math & Interdisciplinary Sci, Beijing 100190, Peoples R China
Recommended Citation
GB/T 7714
Chen, Xing,You, Zhu-Hong,Yan, Gui-Ying,et al. IRWRLDA: improved random walk with restart for lncRNA-disease association prediction[J]. ONCOTARGET,2016,7(36):57919-57931.
APA Chen, Xing,You, Zhu-Hong,Yan, Gui-Ying,&Gong, Dun-Wei.(2016).IRWRLDA: improved random walk with restart for lncRNA-disease association prediction.ONCOTARGET,7(36),57919-57931.
MLA Chen, Xing,et al."IRWRLDA: improved random walk with restart for lncRNA-disease association prediction".ONCOTARGET 7.36(2016):57919-57931.
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