{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,18]],"date-time":"2026-03-18T18:09:58Z","timestamp":1773857398076,"version":"3.50.1"},"reference-count":10,"publisher":"Oxford University Press (OUP)","issue":"4","license":[{"start":{"date-parts":[[2023,4,21]],"date-time":"2023-04-21T00:00:00Z","timestamp":1682035200000},"content-version":"vor","delay-in-days":20,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/100006662","name":"NIHR","doi-asserted-by":"publisher","award":["131575"],"award-info":[{"award-number":["131575"]}],"id":[{"id":"10.13039\/100006662","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2023,4,3]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Summary<\/jats:title>\n                  <jats:p>The discovery of differential gene\u2013gene correlations across phenotypical groups can help identify the activation\/deactivation of critical biological processes underlying specific conditions. The presented R package, provided with a count and design matrix, extract networks of group-specific interactions that can be interactively explored through a shiny user-friendly interface. For each gene\u2013gene link, differential statistical significance is provided through robust linear regression with an interaction term.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>DEGGs is implemented in R and available on GitHub at https:\/\/github.com\/elisabettasciacca\/DEGGs. The package is also under submission on Bioconductor.<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btad192","type":"journal-article","created":{"date-parts":[[2023,4,21]],"date-time":"2023-04-21T18:53:29Z","timestamp":1682103209000},"source":"Crossref","is-referenced-by-count":6,"title":["DEGGs: an R package with shiny app for the identification of differentially expressed gene\u2013gene interactions in high-throughput sequencing data"],"prefix":"10.1093","volume":"39","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-7525-1558","authenticated-orcid":false,"given":"Elisabetta","family":"Sciacca","sequence":"first","affiliation":[{"name":"Centre for Experimental Medicine and Rheumatology, William Harvey Research Institute, Barts and The London School of Medicine and Dentistry, Queen Mary University of London , London EC1M 6BQ, United Kingdom"},{"name":"Centre for Translational Bioinformatics, William Harvey Research Institute, Barts and the London School of Medicine and Dentistry, Queen Mary University of London , London EC1M 6BQ, United Kingdom"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-4825-7617","authenticated-orcid":false,"given":"Salvatore","family":"Alaimo","sequence":"additional","affiliation":[{"name":"Department of Clinical and Experimental Medicine, University of Catania , Catania 95123, Italy"}]},{"given":"Gianmarco","family":"Silluzio","sequence":"additional","affiliation":[{"name":"Dipartimento di Matematica e Informatica, University of Catania , Catania 95123, Italy"}]},{"given":"Alfredo","family":"Ferro","sequence":"additional","affiliation":[{"name":"Department of Clinical and Experimental Medicine, University of Catania , Catania 95123, Italy"}]},{"given":"Vito","family":"Latora","sequence":"additional","affiliation":[{"name":"School of Mathematical Sciences, Queen Mary University , London E1 4NS, United Kingdom"},{"name":"Dipartimento di Fisica ed Astronomia, Universit\u00e0 di Catania and INFN , Catania I-95123, Italy"}]},{"given":"Costantino","family":"Pitzalis","sequence":"additional","affiliation":[{"name":"Centre for Experimental Medicine and Rheumatology, William Harvey Research Institute, Barts and The London School of Medicine and Dentistry, Queen Mary University of London , London EC1M 6BQ, United Kingdom"}]},{"given":"Alfredo","family":"Pulvirenti","sequence":"additional","affiliation":[{"name":"Department of Clinical and Experimental Medicine, University of Catania , Catania 95123, Italy"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9365-5345","authenticated-orcid":false,"given":"Myles J","family":"Lewis","sequence":"additional","affiliation":[{"name":"Centre for Experimental Medicine and Rheumatology, William Harvey Research Institute, Barts and The London School of Medicine and Dentistry, Queen Mary University of London , London EC1M 6BQ, United Kingdom"},{"name":"Centre for Translational Bioinformatics, William Harvey Research Institute, Barts and the London School of Medicine and 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