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lncRNA–disease association prediction method based on the nearest neighbor matrix completion model

State-of-the-art medical studies proved that long noncoding ribonucleic acids (lncRNAs) are closely related to various diseases. However, their large-scale detection in biological experiments is problematic and expensive. To aid screening and improve the efficiency of biological experiments, this st...

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Detalles Bibliográficos
Autores principales: Du, Xiao-xin, Liu, Yan, Wang, Bo, Zhang, Jian-fei
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9755128/
https://www.ncbi.nlm.nih.gov/pubmed/36522410
http://dx.doi.org/10.1038/s41598-022-25730-0
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author Du, Xiao-xin
Liu, Yan
Wang, Bo
Zhang, Jian-fei
author_facet Du, Xiao-xin
Liu, Yan
Wang, Bo
Zhang, Jian-fei
author_sort Du, Xiao-xin
collection PubMed
description State-of-the-art medical studies proved that long noncoding ribonucleic acids (lncRNAs) are closely related to various diseases. However, their large-scale detection in biological experiments is problematic and expensive. To aid screening and improve the efficiency of biological experiments, this study introduced a prediction model based on the nearest neighbor concept for lncRNA–disease association prediction. We used a new similarity algorithm in the model that fused potential associations. The experimental validation of the proposed algorithm proved its superiority over the available Cosine, Pearson, and Jaccard similarity algorithms. Satisfactory results in the comparative leave-one-out cross-validation test (with AUC = 0.96) confirmed its excellent predictive performance. Finally, the proposed model’s reliability was confirmed by performing predictions using a new dataset, yielding AUC = 0.92.
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spelling pubmed-97551282022-12-17 lncRNA–disease association prediction method based on the nearest neighbor matrix completion model Du, Xiao-xin Liu, Yan Wang, Bo Zhang, Jian-fei Sci Rep Article State-of-the-art medical studies proved that long noncoding ribonucleic acids (lncRNAs) are closely related to various diseases. However, their large-scale detection in biological experiments is problematic and expensive. To aid screening and improve the efficiency of biological experiments, this study introduced a prediction model based on the nearest neighbor concept for lncRNA–disease association prediction. We used a new similarity algorithm in the model that fused potential associations. The experimental validation of the proposed algorithm proved its superiority over the available Cosine, Pearson, and Jaccard similarity algorithms. Satisfactory results in the comparative leave-one-out cross-validation test (with AUC = 0.96) confirmed its excellent predictive performance. Finally, the proposed model’s reliability was confirmed by performing predictions using a new dataset, yielding AUC = 0.92. Nature Publishing Group UK 2022-12-15 /pmc/articles/PMC9755128/ /pubmed/36522410 http://dx.doi.org/10.1038/s41598-022-25730-0 Text en © The Author(s) 2022 https://creativecommons.org/licenses/by/4.0/Open Access 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 http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) .
spellingShingle Article
Du, Xiao-xin
Liu, Yan
Wang, Bo
Zhang, Jian-fei
lncRNA–disease association prediction method based on the nearest neighbor matrix completion model
title lncRNA–disease association prediction method based on the nearest neighbor matrix completion model
title_full lncRNA–disease association prediction method based on the nearest neighbor matrix completion model
title_fullStr lncRNA–disease association prediction method based on the nearest neighbor matrix completion model
title_full_unstemmed lncRNA–disease association prediction method based on the nearest neighbor matrix completion model
title_short lncRNA–disease association prediction method based on the nearest neighbor matrix completion model
title_sort lncrna–disease association prediction method based on the nearest neighbor matrix completion model
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9755128/
https://www.ncbi.nlm.nih.gov/pubmed/36522410
http://dx.doi.org/10.1038/s41598-022-25730-0
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