{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,4]],"date-time":"2026-03-04T07:53:19Z","timestamp":1772610799583,"version":"3.50.1"},"reference-count":43,"publisher":"Oxford University Press (OUP)","issue":"17","license":[{"start":{"date-parts":[[2022,7,6]],"date-time":"2022-07-06T00:00:00Z","timestamp":1657065600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"funder":[{"DOI":"10.13039\/100010663","name":"European Research Council","doi-asserted-by":"publisher","award":["788893"],"award-info":[{"award-number":["788893"]}],"id":[{"id":"10.13039\/100010663","id-type":"DOI","asserted-by":"publisher"}]},{"name":"AMDROMA \u2018Algorithmic and Mechanism Design Research in Online Markets\u2019"},{"DOI":"10.13039\/501100000780","name":"European Commission","doi-asserted-by":"publisher","award":["H2020RIA"],"award-info":[{"award-number":["H2020RIA"]}],"id":[{"id":"10.13039\/501100000780","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Ministero Istruzione, Universit\u00e0 e Ricerca"},{"name":"Progetto di Rilevante Interessa Nazionale"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2022,9,2]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:sec><jats:title>Motivation<\/jats:title><jats:p>Over the past decade, network-based approaches have proven useful in identifying disease modules within the human interactome, often providing insights into key mechanisms and guiding the quest for therapeutic targets. This is all the more important, since experimental investigation of potential gene candidates is an expensive task, thus not always a feasible option. On the other hand, many sources of biological information exist beyond the interactome and an important research direction is the design of effective techniques for their integration.<\/jats:p><\/jats:sec><jats:sec><jats:title>Results<\/jats:title><jats:p>In this work, we introduce the Biological Random Walks (BRW) approach for disease gene prioritization in the human interactome. The proposed framework leverages multiple biological sources within an integrated framework. We perform an extensive, comparative study of BRW\u2019s performance against well-established baselines.<\/jats:p><\/jats:sec><jats:sec><jats:title>Availability and implementation<\/jats:title><jats:p>All codes are publicly available and can be downloaded at https:\/\/github.com\/LeoM93\/BiologicalRandomWalks. We used publicly available datasets, details on their retrieval and preprocessing are provided in the Supplementary Material.<\/jats:p><\/jats:sec><jats:sec><jats:title>Supplementary information<\/jats:title><jats:p>Supplementary data are available at Bioinformatics online.<\/jats:p><\/jats:sec>","DOI":"10.1093\/bioinformatics\/btac446","type":"journal-article","created":{"date-parts":[[2022,7,6]],"date-time":"2022-07-06T14:26:36Z","timestamp":1657117596000},"page":"4145-4152","source":"Crossref","is-referenced-by-count":20,"title":["Biological Random Walks: multi-omics integration for disease gene prioritization"],"prefix":"10.1093","volume":"38","author":[{"given":"Michele","family":"Gentili","sequence":"first","affiliation":[{"name":"Department of Computer, Control, and Management Engineering Antonio Ruberti, Sapienza University of Rome , Rome, Italy"}]},{"given":"Leonardo","family":"Martini","sequence":"additional","affiliation":[{"name":"Department of Computer, Control, and Management Engineering Antonio Ruberti, Sapienza University of Rome , Rome, Italy"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-0736-1047","authenticated-orcid":false,"given":"Marialuisa","family":"Sponziello","sequence":"additional","affiliation":[{"name":"Translational and Precision Medicine Department, Sapienza University of Rome , Rome, Italy"}]},{"given":"Luca","family":"Becchetti","sequence":"additional","affiliation":[{"name":"Department of Computer, Control, and Management Engineering Antonio Ruberti, Sapienza University of Rome , Rome, Italy"}]}],"member":"286","published-online":{"date-parts":[[2022,7,6]]},"reference":[{"key":"2023041408371883900_","doi-asserted-by":"crossref","first-page":"D408","DOI":"10.1093\/nar\/gkw985","article-title":"HIPPIE v2. 0: enhancing meaningfulness and reliability of protein\u2013protein interaction networks","volume":"45","author":"Alanis-Lobato","year":"2016","journal-title":"Nucleic Acids Res"},{"key":"2023041408371883900_","doi-asserted-by":"crossref","first-page":"405","DOI":"10.1038\/nature11154","article-title":"Sequence analysis of mutations and translocations across breast cancer subtypes","volume":"486","author":"Banerji","year":"2012","journal-title":"Nature"},{"key":"2023041408371883900_","doi-asserted-by":"crossref","first-page":"56","DOI":"10.1038\/nrg2918","article-title":"Network medicine: a network-based approach to human disease","volume":"12","author":"Barab\u00e1si","year":"2011","journal-title":"Nat. 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