{"id":"https://openalex.org/W3206702761","doi":"https://doi.org/10.1109/tcbb.2021.3120937","title":"A Bridging Centrality Plugin for GEPHI and a Case Study for<i>Mycobacterium Tuberculosis</i>H37Rv","display_name":"A Bridging Centrality Plugin for GEPHI and a Case Study for<i>Mycobacterium Tuberculosis</i>H37Rv","publication_year":2021,"publication_date":"2021-10-20","ids":{"openalex":"https://openalex.org/W3206702761","doi":"https://doi.org/10.1109/tcbb.2021.3120937","mag":"3206702761","pmid":"https://pubmed.ncbi.nlm.nih.gov/34665737"},"language":"en","primary_location":{"id":"doi:10.1109/tcbb.2021.3120937","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbb.2021.3120937","pdf_url":null,"source":{"id":"https://openalex.org/S36029991","display_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5101138358","display_name":"Getulio Pereira","orcid":null},"institutions":[{"id":"https://openalex.org/I80850581","display_name":"Universidade Federal de Uberl\u00e2ndia","ror":"https://ror.org/04x3wvr31","country_code":"BR","type":"education","lineage":["https://openalex.org/I80850581"]}],"countries":["BR"],"is_corresponding":true,"raw_author_name":"Getulio Pereira","raw_affiliation_strings":["Federal University of Uberlandia, Uberl\u00e2ndia, Brazil"],"affiliations":[{"raw_affiliation_string":"Federal University of Uberlandia, Uberl\u00e2ndia, Brazil","institution_ids":["https://openalex.org/I80850581"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5080886331","display_name":"Preetam Ghosh","orcid":"https://orcid.org/0000-0003-3880-5886"},"institutions":[{"id":"https://openalex.org/I184840846","display_name":"Virginia Commonwealth University","ror":"https://ror.org/02nkdxk79","country_code":"US","type":"education","lineage":["https://openalex.org/I184840846"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Preetam Ghosh","raw_affiliation_strings":["Department of Computer Science, Virginia Commonwealth University, Richmond, VA, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Virginia Commonwealth University, Richmond, VA, USA","institution_ids":["https://openalex.org/I184840846"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5071139091","display_name":"Anderson Rodrigues dos Santos","orcid":"https://orcid.org/0000-0003-3418-0823"},"institutions":[{"id":"https://openalex.org/I80850581","display_name":"Universidade Federal de Uberl\u00e2ndia","ror":"https://ror.org/04x3wvr31","country_code":"BR","type":"education","lineage":["https://openalex.org/I80850581"]}],"countries":["BR"],"is_corresponding":false,"raw_author_name":"Anderson Santos","raw_affiliation_strings":["Federal University of Uberlandia, Uberl\u00e2ndia, Brazil"],"affiliations":[{"raw_affiliation_string":"Federal University of Uberlandia, Uberl\u00e2ndia, Brazil","institution_ids":["https://openalex.org/I80850581"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5101138358"],"corresponding_institution_ids":["https://openalex.org/I80850581"],"apc_list":null,"apc_paid":null,"fwci":0.3245,"has_fulltext":false,"cited_by_count":8,"citation_normalized_percentile":{"value":0.56904655,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"18","issue":"6","first_page":"2741","last_page":"2746"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9977999925613403,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9977999925613403,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9976000189781189,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9958999752998352,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/plug-in","display_name":"Plug-in","score":0.8333288431167603},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6211693286895752},{"id":"https://openalex.org/keywords/betweenness-centrality","display_name":"Betweenness centrality","score":0.49024754762649536},{"id":"https://openalex.org/keywords/bridging","display_name":"Bridging (networking)","score":0.459695965051651},{"id":"https://openalex.org/keywords/centrality","display_name":"Centrality","score":0.4486789107322693},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.31087926030158997}],"concepts":[{"id":"https://openalex.org/C4924752","wikidata":"https://www.wikidata.org/wiki/Q184148","display_name":"Plug-in","level":2,"score":0.8333288431167603},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6211693286895752},{"id":"https://openalex.org/C117045392","wikidata":"https://www.wikidata.org/wiki/Q4899215","display_name":"Betweenness centrality","level":3,"score":0.49024754762649536},{"id":"https://openalex.org/C174348530","wikidata":"https://www.wikidata.org/wiki/Q188635","display_name":"Bridging (networking)","level":2,"score":0.459695965051651},{"id":"https://openalex.org/C53811970","wikidata":"https://www.wikidata.org/wiki/Q5062194","display_name":"Centrality","level":2,"score":0.4486789107322693},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.31087926030158997},{"id":"https://openalex.org/C31258907","wikidata":"https://www.wikidata.org/wiki/Q1301371","display_name":"Computer network","level":1,"score":0.0},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.0},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000069377","descriptor_name":"Type VII Secretion Systems","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000069377","descriptor_name":"Type VII Secretion Systems","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000069377","descriptor_name":"Type VII Secretion Systems","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009169","descriptor_name":"Mycobacterium tuberculosis","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D009169","descriptor_name":"Mycobacterium tuberculosis","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D009169","descriptor_name":"Mycobacterium tuberculosis","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016680","descriptor_name":"Genome, Bacterial","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016680","descriptor_name":"Genome, Bacterial","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016680","descriptor_name":"Genome, Bacterial","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1109/tcbb.2021.3120937","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbb.2021.3120937","pdf_url":null,"source":{"id":"https://openalex.org/S36029991","display_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","raw_type":"journal-article"},{"id":"pmid:34665737","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34665737","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE/ACM transactions on computational biology and bioinformatics","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/3","score":0.5099999904632568,"display_name":"Good health and well-being"}],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":30,"referenced_works":["https://openalex.org/W38619841","https://openalex.org/W1508212288","https://openalex.org/W1967932754","https://openalex.org/W2013038528","https://openalex.org/W2023649587","https://openalex.org/W2029311990","https://openalex.org/W2098546008","https://openalex.org/W2099529884","https://openalex.org/W2103017472","https://openalex.org/W2107983230","https://openalex.org/W2125910575","https://openalex.org/W2131681506","https://openalex.org/W2148862092","https://openalex.org/W2150318080","https://openalex.org/W2171707538","https://openalex.org/W2261525379","https://openalex.org/W2263616427","https://openalex.org/W2578374735","https://openalex.org/W2593427132","https://openalex.org/W2594657823","https://openalex.org/W2607240190","https://openalex.org/W2887711510","https://openalex.org/W2900569176","https://openalex.org/W2950595506","https://openalex.org/W3095572487","https://openalex.org/W3099768174","https://openalex.org/W4210627381","https://openalex.org/W4236463097","https://openalex.org/W6601609194","https://openalex.org/W6887803762"],"related_works":["https://openalex.org/W1973509935","https://openalex.org/W4389076551","https://openalex.org/W2097992793","https://openalex.org/W2107855069","https://openalex.org/W2611574733","https://openalex.org/W2241641394","https://openalex.org/W2140653560","https://openalex.org/W2348831795","https://openalex.org/W2514739320","https://openalex.org/W4312461432"],"abstract_inverted_index":{"Bridging":[0,13,179],"Centrality":[1,180],"(BriCe)":[2],"is":[3,62,86,93,184],"a":[4,21,65,74,107,143,163,169],"popular":[5],"measure":[6],"that":[7,34],"combines":[8],"the":[9,31,40,56,69,99,102,111,116,147,173],"Betweenness":[10],"centrality":[11],"and":[12,83,95,152,172,194],"coefficient":[14],"metrics":[15],"to":[16,48,77,122,141,187],"characterize":[17],"nodes":[18],"acting":[19],"as":[20,64,73],"bridge":[22],"among":[23,166],"clusters.":[24],"However,":[25],"there":[26],"were":[27,130,139],"no":[28,80],"implementations":[29],"of":[30,110,118,168],"BriCe":[32,57,89,112,134,154],"plugin":[33,58,76,90,181],"can":[35,97],"be":[36],"readily":[37],"used":[38],"in":[39],"GEPHI":[41,71,92,103,183],"software":[42,46],"or":[43],"any":[44],"other":[45],"dedicated":[47],"graph-based":[49],"studies.":[50],"In":[51],"this":[52],"paper,":[53],"we":[54,114,138],"present":[55],"for":[59,91,182,190],"GEPHI.":[60],"It":[61],"available":[63],"third-party":[66],"functionality":[67],"from":[68,198],"native":[70],"interface":[72],"handy":[75],"add;":[78],"hence,":[79],"additional":[81],"download":[82],"installation":[84],"process":[85],"necessary.":[87],"The":[88,178],"open-source,":[94],"one":[96],"access":[98],"code":[100],"through":[101],"GitHub":[104],"repository.":[105],"As":[106],"use":[108,188],"case":[109],"plugin,":[113],"analyzed":[115],"genome":[117],"Mycobacterium":[119],"tuberculosis":[120],"H37Rv":[121],"identify":[123],"biological":[124],"explanations":[125],"on":[126],"why":[127],"some":[128],"proteins":[129,167],"ranked":[131],"with":[132],"top":[133],"values?":[135],"For":[136],"instance,":[137],"able":[140],"formulate":[142],"new":[144],"hypothesis":[145,161],"combining":[146],"predicted":[148],"sub":[149],"cellular":[150],"localization":[151],"high":[153],"values":[155],"concerning":[156],"lipopolysaccharides":[157],"(LPS)":[158],"exportation.":[159],"Our":[160],"provides":[162],"possible":[164],"link":[165],"glycosyltransferase":[170],"group":[171],"type":[174],"VII":[175],"Secretion":[176],"System.":[177],"an":[185],"easy":[186],"tool":[189],"analyzing":[191],"complex":[192],"graphs":[193],"draw":[195],"novel":[196],"insights":[197],"graphical":[199],"data.":[200]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":3},{"year":2022,"cited_by_count":1}],"updated_date":"2026-03-13T16:22:10.518609","created_date":"2021-10-25T00:00:00"}
