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dc.contributor.authorYao, Dengjuen_US
dc.contributor.authorZhan, Xiaojuanen_US
dc.contributor.authorZhan, Xiaorongen_US
dc.contributor.authorKwoh, Chee Keongen_US
dc.contributor.authorLi, Pengen_US
dc.contributor.authorWang, Jinkeen_US
dc.identifier.citationYao, D., Zhan, X., Zhan, X., Kwoh, C. K., Li, P. & Wang, J. (2020). A random forest based computational model for predicting novel lncRNA-disease associations. BMC Bioinformatics, 21.
dc.description.abstractBackground: Accumulated evidence shows that the abnormal regulation of long non-coding RNA (lncRNA) is associated with various human diseases. Accurately identifying disease-associated lncRNAs is helpful to study the mechanism of lncRNAs in diseases and explore new therapies of diseases. Many lncRNA-disease association (LDA) prediction models have been implemented by integrating multiple kinds of data resources. However, most of the existing models ignore the interference of noisy and redundancy information among these data resources. Results: To improve the ability of LDA prediction models, we implemented a random forest and feature selection based LDA prediction model (RFLDA in short). First, the RFLDA integrates the experiment-supported miRNA-disease associations (MDAs) and LDAs, the disease semantic similarity (DSS), the lncRNA functional similarity (LFS) and the lncRNA-miRNA interactions (LMI) as input features. Then, the RFLDA chooses the most useful features to train prediction model by feature selection based on the random forest variable importance score that takes into account not only the effect of individual feature on prediction results but also the joint effects of multiple features on prediction results. Finally, a random forest regression model is trained to score potential lncRNA-disease associations. In terms of the area under the receiver operating characteristic curve (AUC) of 0.976 and the area under the precision-recall curve (AUPR) of 0.779 under 5-fold cross-validation, the performance of the RFLDA is better than several state-of-the-art LDA prediction models. Moreover, case studies on three cancers demonstrate that 43 of the 45 lncRNAs predicted by the RFLDA are validated by experimental data, and the other two predicted lncRNAs are supported by other LDA prediction models. Conclusions: Cross-validation and case studies indicate that the RFLDA has excellent ability to identify potential disease-associated lncRNAs.en_US
dc.relation.ispartofBMC Bioinformaticsen_US
dc.rights© 2020 The Author(s). This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit The Creative Commons Public Domain Dedication waiver ( applies to the data made available in this article, unless otherwise stated in a credit line to the data.en_US
dc.subjectEngineering::Computer science and engineeringen_US
dc.titleA random forest based computational model for predicting novel lncRNA-disease associationsen_US
dc.typeJournal Articleen
dc.contributor.schoolSchool of Computer Science and Engineeringen_US
dc.description.versionPublished versionen_US
dc.subject.keywordsRandom Foresten_US
dc.subject.keywordsVariable Importanceen_US
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