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A Novel Neighborhood-Based Computational Model for Potential MiRNA-Disease Association Prediction.

作者信息

Liu Yang, Li Xueyong, Feng Xiang, Wang Lei

机构信息

Key Laboratory of Hunan Province for Internet of Things and Information Security, Xiangtan University, Xiangtan, China.

College of Computer Engineering and Applied Mathematics, Changsha University, Changsha 410001, China.

出版信息

Comput Math Methods Med. 2019 Jan 17;2019:5145646. doi: 10.1155/2019/5145646. eCollection 2019.


DOI:10.1155/2019/5145646
PMID:30800172
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC6360053/
Abstract

In recent years, more and more studies have shown that miRNAs can affect a variety of biological processes. It is important for disease prevention, treatment, diagnosis, and prognosis to study the relationships between human diseases and miRNAs. However, traditional experimental methods are time-consuming and labour-intensive. Hence, in this paper, a novel neighborhood-based computational model called NBMDA is proposed for predicting potential miRNA-disease associations. Due to the fact that known miRNA-disease associations are very rare and many diseases (or miRNAs) are associated with only one or a few miRNAs (or diseases), in NBMDA, the -nearest neighbor (KNN) method is utilized as a recommendation algorithm based on known miRNA-disease associations, miRNA functional similarity, disease semantic similarity, and Gaussian interaction profile kernel similarity for miRNAs and diseases to improve its prediction accuracy. And simulation results demonstrate that NBMDA can effectively infer miRNA-disease associations with higher accuracy compared with previous state-of-the-art methods. Moreover, independent case studies of esophageal neoplasms, breast neoplasms and colon neoplasms are further implemented, and as a result, there are 47, 48, and 48 out of the top 50 predicted miRNAs having been successfully confirmed by the previously published literatures, which also indicates that NBMDA can be utilized as a powerful tool to study the relationships between miRNAs and diseases.

摘要
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/6a5f/6360053/cef2cd018712/CMMM2019-5145646.002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/6a5f/6360053/0538c468401c/CMMM2019-5145646.001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/6a5f/6360053/cef2cd018712/CMMM2019-5145646.002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/6a5f/6360053/0538c468401c/CMMM2019-5145646.001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/6a5f/6360053/cef2cd018712/CMMM2019-5145646.002.jpg

相似文献

[1]
A Novel Neighborhood-Based Computational Model for Potential MiRNA-Disease Association Prediction.

Comput Math Methods Med. 2019-1-17

[2]
PBMDA: A novel and effective path-based computational model for miRNA-disease association prediction.

PLoS Comput Biol. 2017-3-24

[3]
A novel computational model based on super-disease and miRNA for potential miRNA-disease association prediction.

Mol Biosyst. 2017-5-30

[4]
Predicting miRNA-disease association based on inductive matrix completion.

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[5]
An improved random forest-based computational model for predicting novel miRNA-disease associations.

BMC Bioinformatics. 2019-12-3

[6]
MDHGI: Matrix Decomposition and Heterogeneous Graph Inference for miRNA-disease association prediction.

PLoS Comput Biol. 2018-8-24

[7]
GIMDA: Graphlet interaction-based MiRNA-disease association prediction.

J Cell Mol Med. 2017-12-22

[8]
NARRMDA: negative-aware and rating-based recommendation algorithm for miRNA-disease association prediction.

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[9]
Predicting miRNA-disease association from heterogeneous information network with GraRep embedding model.

Sci Rep. 2020-4-20

[10]
RKNNMDA: Ranking-based KNN for MiRNA-Disease Association prediction.

RNA Biol. 2017-7-3

引用本文的文献

[1]
KATZNCP: a miRNA-disease association prediction model integrating KATZ algorithm and network consistency projection.

BMC Bioinformatics. 2023-6-2

[2]
Predicting miRNA-disease associations via layer attention graph convolutional network model.

BMC Med Inform Decis Mak. 2022-3-19

[3]
Artificial Intelligence in Epigenetic Studies: Shedding Light on Rare Diseases.

Front Mol Biosci. 2021-5-5

[4]
Predicting metabolite-disease associations based on KATZ model.

BioData Min. 2019-10-26

本文引用的文献

[1]
A Novel Probability Model for LncRNA⁻Disease Association Prediction Based on the Naïve Bayesian Classifier.

Genes (Basel). 2018-7-8

[2]
Prediction of microRNA-disease associations based on distance correlation set.

BMC Bioinformatics. 2018-4-17

[3]
A Semi-Supervised Learning Algorithm for Predicting Four Types MiRNA-Disease Associations by Mutual Information in a Heterogeneous Network.

Genes (Basel). 2018-3-2

[4]
Prediction of potential disease-associated microRNAs using structural perturbation method.

Bioinformatics. 2018-7-15

[5]
A novel computational model based on super-disease and miRNA for potential miRNA-disease association prediction.

Mol Biosyst. 2017-5-30

[6]
Pioneering topological methods for network-based drug-target prediction by exploiting a brain-network self-organization theory.

Brief Bioinform. 2018-11-27

[7]
IRWRLDA: improved random walk with restart for lncRNA-disease association prediction.

Oncotarget. 2016-9-6

[8]
NTSMDA: prediction of miRNA-disease associations by integrating network topological similarity.

Mol Biosyst. 2016-6-21

[9]
ILNCSIM: improved lncRNA functional similarity calculation model.

Oncotarget. 2016-5-3

[10]
Cancer statistics for African Americans, 2016: Progress and opportunities in reducing racial disparities.

CA Cancer J Clin. 2016-2-22

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