{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,25]],"date-time":"2026-04-25T12:53:10Z","timestamp":1777121590259,"version":"3.51.4"},"reference-count":18,"publisher":"Oxford University Press (OUP)","issue":"6","license":[{"start":{"date-parts":[[2020,9,1]],"date-time":"2020-09-01T00:00:00Z","timestamp":1598918400000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100004329","name":"Slovenian Research Agency","doi-asserted-by":"publisher","award":["P2-0103"],"award-info":[{"award-number":["P2-0103"]}],"id":[{"id":"10.13039\/501100004329","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100004329","name":"Slovenian Research Agency","doi-asserted-by":"publisher","award":["N2-0078"],"award-info":[{"award-number":["N2-0078"]}],"id":[{"id":"10.13039\/501100004329","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100004329","name":"Slovenian Research Agency","doi-asserted-by":"publisher","award":["N1-0142"],"award-info":[{"award-number":["N1-0142"]}],"id":[{"id":"10.13039\/501100004329","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2021,5,5]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Motivation<\/jats:title>\n                  <jats:p>Causal biological interaction networks represent cellular regulatory pathways. Their fusion with other biological data enables insights into disease mechanisms and novel opportunities for drug discovery.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Results<\/jats:title>\n                  <jats:p>We developed Causal Network of Diseases (CaNDis), a web server for the exploration of a human causal interaction network, which we expanded with data on diseases and FDA-approved drugs, on the basis of which we constructed a disease\u2013disease network in which the links represent the similarity between diseases. We show how CaNDis can be used to identify candidate genes with known and novel roles in disease co-occurrence and drug\u2013drug interactions.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availabilityand implementation<\/jats:title>\n                  <jats:p>CaNDis is freely available to academic users at http:\/\/candis.ijs.si and http:\/\/candis.insilab.org.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Supplementary information<\/jats:title>\n                  <jats:p>Supplementary data are available at Bioinformatics online.<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btaa762","type":"journal-article","created":{"date-parts":[[2020,8,25]],"date-time":"2020-08-25T19:13:23Z","timestamp":1598382803000},"page":"885-887","source":"Crossref","is-referenced-by-count":6,"title":["CaNDis: a web server for investigation of causal relationships between diseases, drugs and drug targets"],"prefix":"10.1093","volume":"37","author":[{"given":"Bla\u017e","family":"\u0160krlj","sequence":"first","affiliation":[{"name":"Department of Knowledge Technologies, Jo\u017eef Stefan Institute , Slovenia"},{"name":"Jo\u017eef Stefan International Postgraduate School , Slovenia"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Nika","family":"Er\u017een","sequence":"additional","affiliation":[{"name":"Department of Knowledge Technologies, Jo\u017eef Stefan Institute , Slovenia"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Nada","family":"Lavra\u010d","sequence":"additional","affiliation":[{"name":"Department of Knowledge Technologies, Jo\u017eef Stefan Institute , Slovenia"},{"name":"Jo\u017eef Stefan International Postgraduate School , Slovenia"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0465-1762","authenticated-orcid":false,"given":"Tanja","family":"Kunej","sequence":"additional","affiliation":[{"name":"Department of Animal Science, Biotechnical Faculty, University of Ljubljana , Slovenia"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-0160-3375","authenticated-orcid":false,"given":"Janez","family":"Konc","sequence":"additional","affiliation":[{"name":"Theory Department, National Institute of Chemistry , SI-1000 Ljubljana, Slovenia"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2020,9,1]]},"reference":[{"key":"2023051704113968400_btaa762-B1","doi-asserted-by":"crossref","first-page":"673","DOI":"10.1038\/nrd1468","article-title":"Drug repositioning: identifying and developing new uses for existing drugs","volume":"3","author":"Ashburn","year":"2004","journal-title":"Nat. Rev. Drug Discov"},{"key":"2023051704113968400_btaa762-B2","doi-asserted-by":"crossref","first-page":"196","DOI":"10.2174\/156720509788486608","article-title":"A common biological mechanism in cancer and Alzheimer\u2019s disease?","volume":"6","author":"Behrens","year":"2009","journal-title":"Curr. Alzheimer Res"},{"key":"2023051704113968400_btaa762-B3","doi-asserted-by":"crossref","DOI":"10.1093\/database\/bav030","article-title":"Causal biological network database: a comprehensive platform of causal biological network models focused on the pulmonary and vascular systems","volume":"2015","author":"Bou\u00e9","year":"2015","journal-title":"Database (Oxford)"},{"key":"2023051704113968400_btaa762-B4","first-page":"16","article-title":"A network view on Schizophrenia related genes","volume":"2","author":"Chandrasekaran","year":"2012","journal-title":"Network Biol"},{"key":"2023051704113968400_btaa762-B5","doi-asserted-by":"crossref","first-page":"D1068","DOI":"10.1093\/nar\/gkx1143","article-title":"DGIdb 3.0: a redesign and expansion of the drug\u2013gene interaction database","volume":"46","author":"Cotto","year":"2018","journal-title":"Nucleic Acids Res"},{"key":"2023051704113968400_btaa762-B6","doi-asserted-by":"crossref","first-page":"1642","DOI":"10.2353\/ajpath.2006.050872","article-title":"The myxoid\/round cell liposarcoma fusion oncogene FUS-DDIT3 and the normal DDIT3 induce a liposarcoma phenotype in transfected human fibrosarcoma cells","volume":"168","author":"Engstr\u00f6m","year":"2006","journal-title":"Am. J. Pathol"},{"key":"2023051704113968400_btaa762-B7","doi-asserted-by":"crossref","first-page":"729","DOI":"10.6026\/97320630008729","article-title":"PRD: a protein\u2013RNA interaction database","volume":"8","author":"Fujimori","year":"2012","journal-title":"Bioinformation"},{"key":"2023051704113968400_btaa762-B8","doi-asserted-by":"crossref","first-page":"1811","DOI":"10.4161\/auto.22145","article-title":"Attenuation of TNFSF10\/TRAIL-induced apoptosis by an autophagic survival pathway involving TRAF2- and RIPK1\/RIP1-mediated MAPK8\/JNK activation","volume":"8","author":"He","year":"2012","journal-title":"Autophagy"},{"key":"2023051704113968400_btaa762-B9","doi-asserted-by":"crossref","first-page":"615","DOI":"10.1038\/nrg.2016.87","article-title":"Network biology concepts in complex disease comorbidities","volume":"17","author":"Hu","year":"2016","journal-title":"Nat. Rev. Genet"},{"key":"2023051704113968400_btaa762-B10","doi-asserted-by":"crossref","first-page":"e1004173","DOI":"10.1371\/journal.pgen.1004173","article-title":"Molecular evidence for the inverse comorbidity between central nervous system disorders and cancers detected by transcriptomic meta-analyses","volume":"10","author":"Ib\u00e1\u00f1ez","year":"2014","journal-title":"PLoS Genet"},{"key":"2023051704113968400_btaa762-B11","doi-asserted-by":"crossref","first-page":"W253","DOI":"10.1093\/nar\/gkx420","article-title":"GenProBiS: web server for mapping of sequence variants to protein binding sites","volume":"45","author":"Konc","year":"2017","journal-title":"Nucleic Acids Res"},{"key":"2023051704113968400_btaa762-B12","doi-asserted-by":"crossref","first-page":"11108","DOI":"10.1074\/jbc.M115.645333","article-title":"DDIT3 and KAT2A proteins regulate TNFRSF10A and TNFRSF10B expression in endoplasmic reticulum stress-mediated apoptosis in human lung cancer cells","volume":"290","author":"Li","year":"2015","journal-title":"J. Biol. Chem"},{"key":"2023051704113968400_btaa762-B13","first-page":"D504","article-title":"SIGNOR 2.0, the SIGnaling Network Open Resource 2.0: 2019 update","volume":"48","author":"Licata","year":"2020","journal-title":"Nucleic Acids Res"},{"key":"2023051704113968400_btaa762-B14","first-page":"D845","article-title":"The DisGeNET knowledge platform for disease genomics: 2019 update","volume":"48","author":"Pi\u00f1ero","year":"2020","journal-title":"Nucleic Acids Res"},{"key":"2023051704113968400_btaa762-B15","doi-asserted-by":"crossref","first-page":"762","DOI":"10.1038\/mp.2014.40","article-title":"Copy number variation in schizophrenia in Sweden","volume":"19","author":"Szatkiewicz","year":"2014","journal-title":"Mol. Psychiatry"},{"key":"2023051704113968400_btaa762-B16","doi-asserted-by":"crossref","first-page":"D607","DOI":"10.1093\/nar\/gky1131","article-title":"STRING v11: protein\u2013protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets","volume":"47","author":"Szklarczyk","year":"2019","journal-title":"Nucleic Acids Res"},{"key":"2023051704113968400_btaa762-B17","doi-asserted-by":"crossref","first-page":"563","DOI":"10.1038\/mp.2009.2","article-title":"Chromosome 8p as a potential hub for developmental neuropsychiatric disorders: implications for schizophrenia, autism and cancer","volume":"14","author":"Tabar\u00e9s-Seisdedos","year":"2009","journal-title":"Mol. Psychiatry"},{"key":"2023051704113968400_btaa762-B18","doi-asserted-by":"crossref","first-page":"273","DOI":"10.1016\/j.schres.2013.01.026","article-title":"The regulation of gene expression involved in TGF-\u03b2 signaling by ZNF804A, a risk gene for schizophrenia","volume":"146","author":"Umeda-Yano","year":"2013","journal-title":"Schizophr. Res"}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/academic.oup.com\/bioinformatics\/advance-article-pdf\/doi\/10.1093\/bioinformatics\/btaa762\/33747532\/btaa762.pdf","content-type":"application\/pdf","content-version":"am","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/37\/6\/885\/50356907\/btaa762.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/37\/6\/885\/50356907\/btaa762.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,5,17]],"date-time":"2023-05-17T04:12:16Z","timestamp":1684296736000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/37\/6\/885\/5900258"}},"subtitle":[],"editor":[{"given":"Lenore","family":"Cowen","sequence":"additional","affiliation":[],"role":[{"role":"editor","vocabulary":"crossref"}]}],"short-title":[],"issued":{"date-parts":[[2020,9,1]]},"references-count":18,"journal-issue":{"issue":"6","published-print":{"date-parts":[[2021,5,5]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btaa762","relation":{},"ISSN":["1367-4803","1367-4811"],"issn-type":[{"value":"1367-4803","type":"print"},{"value":"1367-4811","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2021,3,15]]},"published":{"date-parts":[[2020,9,1]]}}}