{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,22]],"date-time":"2026-04-22T02:32:06Z","timestamp":1776825126966,"version":"3.51.2"},"reference-count":10,"publisher":"Oxford University Press (OUP)","issue":"2","license":[{"start":{"date-parts":[[2016,9,23]],"date-time":"2016-09-23T00:00:00Z","timestamp":1474588800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/about_us\/legal\/notices"}],"funder":[{"name":"European Commission, Seven Framework Program","award":["EVOTARFP7-HEALTH-282004"],"award-info":[{"award-number":["EVOTARFP7-HEALTH-282004"]}]},{"name":"European Commission, Seven Framework Program","award":["PI15-00466"],"award-info":[{"award-number":["PI15-00466"]}]},{"name":"European Commission, Seven Framework Program","award":["PLASWIRES-612146\/FP7-ICT-2013-10"],"award-info":[{"award-number":["PLASWIRES-612146\/FP7-ICT-2013-10"]}]},{"name":"CIBER in Epidemiology and Public Health","award":["CIBERESP; CB06\/02\/0053"],"award-info":[{"award-number":["CIBERESP; CB06\/02\/0053"]}]},{"name":"Regional Government of Madrid","award":["PROMPT-S2010\/BMD2414"],"award-info":[{"award-number":["PROMPT-S2010\/BMD2414"]}]},{"name":"Regional Government of Madrid","award":["2016"],"award-info":[{"award-number":["2016"]}]},{"name":"European Society for Clinical Microbiology and Infectious Diseases"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2017,1,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>AcCNET (Accessory genome Constellation Network) is a Perl application that aims to compare accessory genomes of a large number of genomic units, both at qualitative and quantitative levels. Using the proteomes extracted from the analysed genomes, AcCNET creates a bipartite network compatible with standard network analysis platforms. AcCNET allows merging phylogenetic and functional information about the concerned genomes, thus improving the capability of current methods of network analysis. The AcCNET bipartite network opens a new perspective to explore the pangenome of bacterial species, focusing on the accessory genome behind the idiosyncrasy of a particular strain and\/or population.<\/jats:p>\n               <jats:sec>\n                  <jats:title>Availability and Implementation<\/jats:title>\n                  <jats:p>AcCNET is available under GNU General Public License version 3.0 (GPLv3) from http:\/\/sourceforge.net\/projects\/accnet<\/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\/btw601","type":"journal-article","created":{"date-parts":[[2016,9,24]],"date-time":"2016-09-24T01:11:09Z","timestamp":1474679469000},"page":"283-285","source":"Crossref","is-referenced-by-count":47,"title":["AcCNET (<u>Ac<\/u>cessory Genome <u>C<\/u>onstellation <u>Net<\/u>work): comparative genomics software for accessory genome analysis using bipartite networks"],"prefix":"10.1093","volume":"33","author":[{"given":"Val F","family":"Lanza","sequence":"first","affiliation":[{"name":"Department of Microbiology, Ram\u00f3n y Cajal University Hospital, Ram\u00f3n y Cajal Health Research Institute (IRYCIS), Madrid, Spain"},{"name":"Join Unit of Antibiotic Resistance and Bacterial Virulence Associated with the Spanish National Research Council (CSIC)"},{"name":"CIBER in Epidemiology and Public Health (CIBER-ESP), Madrid, Spain"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Fernando","family":"Baquero","sequence":"additional","affiliation":[{"name":"Department of Microbiology, Ram\u00f3n y Cajal University Hospital, Ram\u00f3n y Cajal Health Research Institute (IRYCIS), Madrid, Spain"},{"name":"Join Unit of Antibiotic Resistance and Bacterial Virulence Associated with the Spanish National Research Council (CSIC)"},{"name":"CIBER in Epidemiology and Public Health (CIBER-ESP), Madrid, Spain"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Fernando","family":"de la Cruz","sequence":"additional","affiliation":[{"name":"Departamento de Biolog\u00eda Molecular, Universidad de Cantabria and Instituto de Biomedicina y Biotecnolog\u00eda de Cantabria IBBTEC (UC-CSIC), Santander, Spain"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Teresa M","family":"Coque","sequence":"additional","affiliation":[{"name":"Department of Microbiology, Ram\u00f3n y Cajal University Hospital, Ram\u00f3n y Cajal Health Research Institute (IRYCIS), Madrid, Spain"},{"name":"Join Unit of Antibiotic Resistance and Bacterial Virulence Associated with the Spanish National Research Council (CSIC)"},{"name":"CIBER in Epidemiology and Public Health (CIBER-ESP), Madrid, Spain"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2016,9,23]]},"reference":[{"key":"2023020204312340200_btw601-B1","doi-asserted-by":"crossref","first-page":"e39107.","DOI":"10.1371\/journal.pone.0039107","article-title":"Gegenees: fragmented alignment of multiple genomes for determining phylogenomic distances and genetic signatures unique for specified target groups","volume":"7\/6","author":"Agren","year":"2012","journal-title":"PloS One"},{"key":"2023020204312340200_btw601-B2","first-page":"361","volume-title":"ICWSM","author":"Bastian","year":"2009"},{"key":"2023020204312340200_btw601-B3","doi-asserted-by":"crossref","first-page":"1972","DOI":"10.1093\/bioinformatics\/btp348","article-title":"trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses","volume":"25\/15","author":"Capella-Guti\u00e9rrez","year":"2009","journal-title":"Bioinformatics"},{"key":"2023020204312340200_btw601-B4","doi-asserted-by":"crossref","first-page":"7696","DOI":"10.1128\/AEM.02411-13","article-title":"GET_HOMOLOGUES, a versatile software package for scalable and robust microbial pangenome analysis","volume":"79\/24","author":"Contreras-Moreira","year":"2013","journal-title":"Appl. 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