Genome-wide discovery of hidden genes mediating known drug-disease association using KDDANet

Abstract Many of genes mediating Known Drug-Disease Association (KDDA) are escaped from experimental detection. Identifying of these genes (hidden genes) is of great significance for understanding disease pathogenesis and guiding drug repurposing. Here, we presented a novel computational tool, calle...

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Autores principales:	Hua Yu, Lu Lu, Ming Chen, Chen Li, Jin Zhang
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Genetics QH426-470
Acceso en línea:	https://doaj.org/article/e014127581934eada7759bad1f929a14
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spelling	oai:doaj.org-article:e014127581934eada7759bad1f929a142021-12-02T17:41:29ZGenome-wide discovery of hidden genes mediating known drug-disease association using KDDANet10.1038/s41525-021-00216-62056-7944https://doaj.org/article/e014127581934eada7759bad1f929a142021-06-01T00:00:00Zhttps://doi.org/10.1038/s41525-021-00216-6https://doaj.org/toc/2056-7944Abstract Many of genes mediating Known Drug-Disease Association (KDDA) are escaped from experimental detection. Identifying of these genes (hidden genes) is of great significance for understanding disease pathogenesis and guiding drug repurposing. Here, we presented a novel computational tool, called KDDANet, for systematic and accurate uncovering the hidden genes mediating KDDA from the perspective of genome-wide functional gene interaction network. KDDANet demonstrated the competitive performances in both sensitivity and specificity of identifying genes in mediating KDDA in comparison to the existing state-of-the-art methods. Case studies on Alzheimer’s disease (AD) and obesity uncovered the mechanistic relevance of KDDANet predictions. Furthermore, when applied with multiple types of cancer-omics datasets, KDDANet not only recapitulated known genes mediating KDDAs related to cancer, but also revealed novel candidates that offer new biological insights. Importantly, KDDANet can be used to discover the shared genes mediating multiple KDDAs. KDDANet can be accessed at http://www.kddanet.cn and the code can be freely downloaded at https://github.com/huayu1111/KDDANet .Hua YuLu LuMing ChenChen LiJin ZhangNature PortfolioarticleMedicineRGeneticsQH426-470ENnpj Genomic Medicine, Vol 6, Iss 1, Pp 1-14 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Genetics QH426-470
spellingShingle	Medicine R Genetics QH426-470 Hua Yu Lu Lu Ming Chen Chen Li Jin Zhang Genome-wide discovery of hidden genes mediating known drug-disease association using KDDANet
description	Abstract Many of genes mediating Known Drug-Disease Association (KDDA) are escaped from experimental detection. Identifying of these genes (hidden genes) is of great significance for understanding disease pathogenesis and guiding drug repurposing. Here, we presented a novel computational tool, called KDDANet, for systematic and accurate uncovering the hidden genes mediating KDDA from the perspective of genome-wide functional gene interaction network. KDDANet demonstrated the competitive performances in both sensitivity and specificity of identifying genes in mediating KDDA in comparison to the existing state-of-the-art methods. Case studies on Alzheimer’s disease (AD) and obesity uncovered the mechanistic relevance of KDDANet predictions. Furthermore, when applied with multiple types of cancer-omics datasets, KDDANet not only recapitulated known genes mediating KDDAs related to cancer, but also revealed novel candidates that offer new biological insights. Importantly, KDDANet can be used to discover the shared genes mediating multiple KDDAs. KDDANet can be accessed at http://www.kddanet.cn and the code can be freely downloaded at https://github.com/huayu1111/KDDANet .
format	article
author	Hua Yu Lu Lu Ming Chen Chen Li Jin Zhang
author_facet	Hua Yu Lu Lu Ming Chen Chen Li Jin Zhang
author_sort	Hua Yu
title	Genome-wide discovery of hidden genes mediating known drug-disease association using KDDANet
title_short	Genome-wide discovery of hidden genes mediating known drug-disease association using KDDANet
title_full	Genome-wide discovery of hidden genes mediating known drug-disease association using KDDANet
title_fullStr	Genome-wide discovery of hidden genes mediating known drug-disease association using KDDANet
title_full_unstemmed	Genome-wide discovery of hidden genes mediating known drug-disease association using KDDANet
title_sort	genome-wide discovery of hidden genes mediating known drug-disease association using kddanet
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/e014127581934eada7759bad1f929a14
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_version_	1718379675386904576

Genome-wide discovery of hidden genes mediating known drug-disease association using KDDANet

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