KMS Of Academy of mathematics and systems sciences, CAS
| ILNCSIM: improved lncRNA functional similarity calculation model | |
| Huang, Yu-An1; Chen, Xing2,3; You, Zhu-Hong4; Huang, De-Shuang5; Chan, Keith C. C.6 | |
| 2016-05-03 | |
| 发表期刊 | ONCOTARGET
 |
| ISSN | 1949-2553 |
| 卷号 | 7期号:18页码:25902-25914 |
| 摘要 | Increasing observations have indicated that lncRNAs play a significant role in various critical biological processes and the development and progression of various human diseases. Constructing lncRNA functional similarity networks could benefit the development of computational models for inferring lncRNA functions and identifying lncRNA-disease associations. However, little effort has been devoted to quantifying lncRNA functional similarity. In this study, we developed an Improved LNCRNA functional SIMilarity calculation model (ILNCSIM) based on the assumption that lncRNAs with similar biological functions tend to be involved in similar diseases. The main improvement comes from the combination of the concept of information content and the hierarchical structure of disease directed acyclic graphs for disease similarity calculation. ILNCSIM was combined with the previously proposed model of Laplacian Regularized Least Squares for lncRNA-Disease Association to further evaluate its performance. As a result, new model obtained reliable performance in the leave-one-out cross validation (AUCs of 0.9316 and 0.9074 based on MNDR and Lnc2cancer databases, respectively), and 5-fold cross validation (AUCs of 0.9221 and 0.9033 for MNDR and Lnc2cancer databases), which significantly improved the prediction performance of previous models. It is anticipated that ILNCSIM could serve as an effective lncRNA function prediction model for future biomedical researches. |
| 关键词 | lncRNAs functional similarity disease cancer directed acyclic graph |
| DOI | 10.18632/oncotarget.8296 |
| 语种 | 英语 |
| 资助项目 | National Natural Science of Foundation of China[11301517] ; National Natural Science of Foundation of China[61572506] ; National Center for Mathematics and Interdisciplinary Sciences, CAS |
| WOS研究方向 | Oncology ; Cell Biology |
| WOS类目 | Oncology ; Cell Biology |
| WOS记录号 | WOS:000377722300077 |
| 出版者 | IMPACT JOURNALS LLC |
| 引用统计 | |
| 文献类型 | 期刊论文 |
| 条目标识符 | http://ir.amss.ac.cn/handle/2S8OKBNM/22884 |
| 专题 | 中国科学院数学与系统科学研究院 |
| 通讯作者 | Chen, Xing; You, Zhu-Hong |
| 作者单位 | 1.Shenzhen Univ, Coll Comp Sci & Software Engn, Shenzhen 518060, Peoples R China 2.Chinese Acad Sci, Acad Math & Syst Sci, Beijing 100190, Peoples R China 3.Chinese Acad Sci, Natl Ctr Math & Interdisciplinary Sci, Beijing 100190, Peoples R China 4.China Univ Min & Technol, Sch Comp Sci & Technol, Xuzhou 221116, Peoples R China 5.Tongji Univ, Sch Elect & Informat Engn, Shanghai 201804, Peoples R China 6.Hong Kong Polytech Univ, Dept Comp, Hong Kong, Hong Kong, Peoples R China |
| 推荐引用方式 GB/T 7714 | Huang, Yu-An,Chen, Xing,You, Zhu-Hong,et al. ILNCSIM: improved lncRNA functional similarity calculation model[J]. ONCOTARGET,2016,7(18):25902-25914. |
| APA | Huang, Yu-An,Chen, Xing,You, Zhu-Hong,Huang, De-Shuang,&Chan, Keith C. C..(2016).ILNCSIM: improved lncRNA functional similarity calculation model.ONCOTARGET,7(18),25902-25914. |
| MLA | Huang, Yu-An,et al."ILNCSIM: improved lncRNA functional similarity calculation model".ONCOTARGET 7.18(2016):25902-25914. |
| 条目包含的文件 | 条目无相关文件。 | |||||
除非特别说明，本系统中所有内容都受版权保护，并保留所有权利。
修改评论