{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,6,11]],"date-time":"2026-06-11T01:24:53Z","timestamp":1781141093770,"version":"3.54.1"},"reference-count":44,"publisher":"PeerJ","license":[{"start":{"date-parts":[[2024,7,23]],"date-time":"2024-07-23T00:00:00Z","timestamp":1721692800000},"content-version":"unspecified","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"Major Project of Philosophy and Social Sciences of the Ministry of Education","award":["21JDA050"],"award-info":[{"award-number":["21JDA050"]}]},{"name":"Research Fund of National Language Commission","award":["YB145-2"],"award-info":[{"award-number":["YB145-2"]}]},{"name":"Guangdong Education Department Project Foundation","award":["2017KTSCX064"],"award-info":[{"award-number":["2017KTSCX064"]}]},{"name":"Guangdong Philosophy and Social Sciences Foundation","award":["GD20XZY01"],"award-info":[{"award-number":["GD20XZY01"]}]},{"name":"Guangdong University of Foreign Studies Project Foundation","award":["LAI202305, LEC2019ZBKT002 and LEC2022ZBKT005"],"award-info":[{"award-number":["LAI202305, LEC2019ZBKT002 and LEC2022ZBKT005"]}]},{"name":"Guangzhou Science and Technology Project Foundation","award":["202201010717"],"award-info":[{"award-number":["202201010717"]}]},{"DOI":"10.13039\/501100004761","name":"Hainan Natural Science Foundation","doi-asserted-by":"crossref","award":["620QN282, 621MS054"],"award-info":[{"award-number":["620QN282, 621MS054"]}],"id":[{"id":"10.13039\/501100004761","id-type":"DOI","asserted-by":"crossref"}]},{"name":"China Ministry of Education Foundation","award":["21YJC740058"],"award-info":[{"award-number":["21YJC740058"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"abstract":"<jats:p>Piwi-interacting RNA (piRNA) is a type of non-coding small RNA that is highly expressed in mammalian testis. PiRNA has been implicated in various human diseases, but the experimental validation of piRNA-disease associations is costly and time-consuming. In this article, a novel computational method for predicting piRNA-disease associations using a multi-channel graph variational autoencoder (MC-GVAE) is proposed. This method integrates four types of similarity networks for piRNAs and diseases, which are derived from piRNA sequences, disease semantics, piRNA Gaussian Interaction Profile (GIP) kernel, and disease GIP kernel, respectively. These networks are modeled by a graph VAE framework, which can learn low-dimensional and informative feature representations for piRNAs and diseases. Then, a multi-channel method is used to fuse the feature representations from different networks. Finally, a three-layer neural network classifier is applied to predict the potential associations between piRNAs and diseases. The method was evaluated on a benchmark dataset containing 5,002 experimentally validated associations with 4,350 piRNAs and 21 diseases, constructed from the piRDisease v1.0 database. It achieved state-of-the-art performance, with an average AUC value of 0.9310 and an AUPR value of 0.9247 under five-fold cross-validation. This demonstrates the method\u2019s effectiveness and superiority in piRNA-disease association prediction.<\/jats:p>","DOI":"10.7717\/peerj-cs.2216","type":"journal-article","created":{"date-parts":[[2024,7,23]],"date-time":"2024-07-23T07:16:49Z","timestamp":1721719009000},"page":"e2216","source":"Crossref","is-referenced-by-count":8,"title":["piRNA-disease association prediction based on multi-channel graph variational autoencoder"],"prefix":"10.7717","volume":"10","author":[{"given":"Wei","family":"Sun","sequence":"first","affiliation":[{"name":"School of Information Science and Technology, Qiongtai Normal University, Haikou, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Chang","family":"Guo","sequence":"additional","affiliation":[{"name":"School of Modern Information Industry, Guangzhou College of Commerce, Guangzhou, 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