{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,1,17]],"date-time":"2026-01-17T06:29:12Z","timestamp":1768631352037,"version":"3.49.0"},"reference-count":37,"publisher":"Oxford University Press (OUP)","issue":"4","license":[{"start":{"date-parts":[[2024,7,22]],"date-time":"2024-07-22T00:00:00Z","timestamp":1721606400000},"content-version":"vor","delay-in-days":60,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2024,5,23]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Motivation<\/jats:title>\n                  <jats:p>Drug repositioning, the identification of new therapeutic uses for existing drugs, is crucial for accelerating drug discovery and reducing development costs. Some methods rely on heterogeneous networks, which may not fully capture the complex relationships between drugs and diseases. However, integrating diverse biological data sources offers promise for discovering new drug\u2013disease associations (DDAs). Previous evidence indicates that the combination of information would be conducive to the discovery of new DDAs. However, the challenge lies in effectively integrating different biological data sources to identify the most effective drugs for a certain disease based on drug\u2013disease coupled mechanisms.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Results<\/jats:title>\n                  <jats:p>In response to this challenge, we present MiRAGE, a novel computational method for drug repositioning. MiRAGE leverages a three-step framework, comprising negative sampling using hard negative mining, classification employing random forest models, and feature selection based on feature importance. We evaluate MiRAGE on multiple benchmark datasets, demonstrating its superiority over state-of-the-art algorithms across various metrics. Notably, MiRAGE consistently outperforms other methods in uncovering novel DDAs. Case studies focusing on Parkinson\u2019s disease and schizophrenia showcase MiRAGE\u2019s ability to identify top candidate drugs supported by previous studies. Overall, our study underscores MiRAGE\u2019s efficacy and versatility as a computational tool for drug repositioning, offering valuable insights for therapeutic discoveries and addressing unmet medical needs.<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/bib\/bbae337","type":"journal-article","created":{"date-parts":[[2024,7,22]],"date-time":"2024-07-22T23:40:23Z","timestamp":1721691623000},"source":"Crossref","is-referenced-by-count":7,"title":["MiRAGE: mining relationships for advanced generative evaluation in drug repositioning"],"prefix":"10.1093","volume":"25","author":[{"given":"Aria","family":"Hassanali Aragh","sequence":"first","affiliation":[{"name":"Department of Computer and Data Sciences, Faculty of Mathematical Sciences, Shahid Beheshti University , Daneshjou Blvd, District 1, Tehran 1983969411 , Iran"}]},{"given":"Pegah","family":"Givehchian","sequence":"additional","affiliation":[{"name":"Department of Computer and Data Sciences, Faculty of Mathematical Sciences, Shahid Beheshti University , Daneshjou Blvd, District 1, Tehran 1983969411 , Iran"}]},{"given":"Razieh","family":"Moslemi Amirani","sequence":"additional","affiliation":[{"name":"Department of Computer and Data Sciences, Faculty of Mathematical Sciences, Shahid Beheshti University , Daneshjou Blvd, District 1, Tehran 1983969411 , Iran"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8166-3815","authenticated-orcid":false,"given":"Raziyeh","family":"Masumshah","sequence":"additional","affiliation":[{"name":"Department of Computer and Data Sciences, Faculty of Mathematical Sciences, Shahid Beheshti University , Daneshjou Blvd, District 1, Tehran 1983969411 , Iran"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8913-3904","authenticated-orcid":false,"given":"Changiz","family":"Eslahchi","sequence":"additional","affiliation":[{"name":"Department of Computer and Data Sciences, Faculty of Mathematical Sciences, Shahid Beheshti University , Daneshjou Blvd, District 1, Tehran 1983969411 , Iran"},{"name":"School of Biological Sciences, Institute for Research in Fundamental Sciences (IPM) , Farmanieh Ave, Tajrish, District 1, Tehran 193955746 , Iran"}]}],"member":"286","published-online":{"date-parts":[[2024,7,22]]},"reference":[{"key":"2024072223401674900_ref1","doi-asserted-by":"crossref","first-page":"2","DOI":"10.1093\/bib\/bbv020","article-title":"A survey of current trends in computational drug repositioning","volume":"17","author":"Li","year":"2016","journal-title":"Brief Bioinform"},{"key":"2024072223401674900_ref2","doi-asserted-by":"crossref","first-page":"588","DOI":"10.1016\/j.coi.2013.08.004","article-title":"Drug repurposing: a better approach for infectious disease drug discovery?","volume":"25","author":"Law","year":"2013","journal-title":"Curr Opin Immunol"},{"key":"2024072223401674900_ref3","doi-asserted-by":"crossref","first-page":"1421","DOI":"10.1016\/S1359-6446(05)03632-9","article-title":"Keynote review: in vitro safety pharmacology profiling: an 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