{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,16]],"date-time":"2026-03-16T22:23:23Z","timestamp":1773699803828,"version":"3.50.1"},"reference-count":39,"publisher":"Oxford University Press (OUP)","issue":"15","license":[{"start":{"date-parts":[[2020,5,12]],"date-time":"2020-05-12T00:00:00Z","timestamp":1589241600000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2020,8,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:sec>\n                    <jats:title>Motivation<\/jats:title>\n                    <jats:p>Intercellular communication plays an essential role in multicellular organisms and several algorithms to analyze it from single-cell transcriptional data have been recently published, but the results are often hard to visualize and interpret.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Results<\/jats:title>\n                    <jats:p>We developed Cell cOmmunication exploration with MUltiplex NETworks (COMUNET), a tool that streamlines the interpretation of the results from cell\u2013cell communication analyses. COMUNET uses multiplex networks to represent and cluster all potential communication patterns between cell types. The algorithm also enables the search for specific patterns of communication and can perform comparative analysis between two biological conditions. To exemplify its use, here we apply COMUNET to investigate cell communication patterns in single-cell transcriptomic datasets from mouse embryos and from an acute myeloid leukemia patient at diagnosis and after treatment.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Availability and implementation<\/jats:title>\n                    <jats:p>Our algorithm is implemented in an R package available from https:\/\/github.com\/ScialdoneLab\/COMUNET, along with all the code to perform the analyses reported here.<\/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\/btaa482","type":"journal-article","created":{"date-parts":[[2020,5,5]],"date-time":"2020-05-05T07:12:03Z","timestamp":1588662723000},"page":"4296-4300","source":"Crossref","is-referenced-by-count":28,"title":["COMUNET: a tool to explore and visualize intercellular communication"],"prefix":"10.1093","volume":"36","author":[{"given":"Maria","family":"Solovey","sequence":"first","affiliation":[{"name":"Institute of Computational Biology, Helmholtz Zentrum M\u00fcnchen \u2013 German Research Center for Environmental Health , Neuherberg 85764, Germany"},{"name":"Institute of Epigenetics and Stem Cells, Helmholtz Zentrum M\u00fcnchen \u2013 German Research Center for Environmental Health , M\u00fcnchen 81377, Germany"},{"name":"Institute of Functional Epigenetics, Helmholtz Zentrum M\u00fcnchen \u2013 German Research Center for Environmental Health , Neuherberg 85764, Germany"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-4956-2843","authenticated-orcid":false,"given":"Antonio","family":"Scialdone","sequence":"additional","affiliation":[{"name":"Institute of Computational Biology, Helmholtz Zentrum M\u00fcnchen \u2013 German Research Center for Environmental Health , Neuherberg 85764, Germany"},{"name":"Institute of Epigenetics and Stem Cells, Helmholtz Zentrum M\u00fcnchen \u2013 German Research Center for Environmental Health , M\u00fcnchen 81377, Germany"},{"name":"Institute of Functional Epigenetics, Helmholtz Zentrum M\u00fcnchen \u2013 German Research Center for Environmental Health , Neuherberg 85764, Germany"}]}],"member":"286","published-online":{"date-parts":[[2020,5,12]]},"reference":[{"key":"2023062312041316300_btaa482-B1","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1155\/2014\/292376","article-title":"The inflammatory chemokine CCL5 and cancer progression","volume":"2014","author":"Aldinucci","year":"2014","journal-title":"Mediat. 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