{"id":"https://openalex.org/W3203337531","doi":"https://doi.org/10.1145/3468266","title":"Transcriptional Regulatory Network Topology with Applications to Bio-inspired Networking: A Survey","display_name":"Transcriptional Regulatory Network Topology with Applications to Bio-inspired Networking: A Survey","publication_year":2021,"publication_date":"2021-10-04","ids":{"openalex":"https://openalex.org/W3203337531","doi":"https://doi.org/10.1145/3468266","mag":"3203337531"},"language":"en","primary_location":{"id":"doi:10.1145/3468266","is_oa":true,"landing_page_url":"https://doi.org/10.1145/3468266","pdf_url":"https://dl.acm.org/doi/pdf/10.1145/3468266","source":{"id":"https://openalex.org/S157921468","display_name":"ACM Computing Surveys","issn_l":"0360-0300","issn":["0360-0300","1557-7341"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319798","host_organization_name":"Association for Computing Machinery","host_organization_lineage":["https://openalex.org/P4310319798"],"host_organization_lineage_names":["Association for Computing Machinery"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"ACM Computing Surveys","raw_type":"journal-article"},"type":"review","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://dl.acm.org/doi/pdf/10.1145/3468266","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5062065730","display_name":"Satyaki Roy","orcid":"https://orcid.org/0000-0001-6767-266X"},"institutions":[{"id":"https://openalex.org/I20382870","display_name":"Missouri University of Science and Technology","ror":"https://ror.org/00scwqd12","country_code":"US","type":"education","lineage":["https://openalex.org/I20382870"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Satyaki Roy","raw_affiliation_strings":["Missouri University of Science and Technology, Carrboro, NC, USA"],"affiliations":[{"raw_affiliation_string":"Missouri University of Science and Technology, Carrboro, NC, USA","institution_ids":["https://openalex.org/I20382870"]}]},{"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":["Virginia Commonwealth University, Richmond, Virginia, USA"],"affiliations":[{"raw_affiliation_string":"Virginia Commonwealth University, Richmond, Virginia, USA","institution_ids":["https://openalex.org/I184840846"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5072425803","display_name":"Nirnay Ghosh","orcid":"https://orcid.org/0000-0003-4079-8259"},"institutions":[{"id":"https://openalex.org/I98365261","display_name":"Indian Institute of Engineering Science and Technology, Shibpur","ror":"https://ror.org/02ytfzr55","country_code":"IN","type":"education","lineage":["https://openalex.org/I98365261"]}],"countries":["IN"],"is_corresponding":false,"raw_author_name":"Nirnay Ghosh","raw_affiliation_strings":["Indian Institute of Engineering Science and Technology, (IIEST), Howrah, West Bengal, India"],"affiliations":[{"raw_affiliation_string":"Indian Institute of Engineering Science and Technology, (IIEST), Howrah, West Bengal, India","institution_ids":["https://openalex.org/I98365261"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5050881965","display_name":"Sajal K. Das","orcid":"https://orcid.org/0000-0002-9471-0868"},"institutions":[{"id":"https://openalex.org/I20382870","display_name":"Missouri University of Science and Technology","ror":"https://ror.org/00scwqd12","country_code":"US","type":"education","lineage":["https://openalex.org/I20382870"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Sajal K. Das","raw_affiliation_strings":["Missouri University of Science and Technology, Rolla, MO, USA"],"affiliations":[{"raw_affiliation_string":"Missouri University of Science and Technology, Rolla, MO, USA","institution_ids":["https://openalex.org/I20382870"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5062065730"],"corresponding_institution_ids":["https://openalex.org/I20382870"],"apc_list":null,"apc_paid":null,"fwci":0.4066,"has_fulltext":true,"cited_by_count":6,"citation_normalized_percentile":{"value":0.59830533,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":97},"biblio":{"volume":"54","issue":"8","first_page":"1","last_page":"36"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9994999766349792,"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9994999766349792,"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/T13052","display_name":"Molecular Communication and Nanonetworks","score":0.9947999715805054,"subfield":{"id":"https://openalex.org/subfields/2204","display_name":"Biomedical Engineering"},"field":{"id":"https://openalex.org/fields/22","display_name":"Engineering"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9879999756813049,"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/computer-science","display_name":"Computer science","score":0.8253877758979797},{"id":"https://openalex.org/keywords/network-topology","display_name":"Network topology","score":0.6458860635757446},{"id":"https://openalex.org/keywords/distributed-computing","display_name":"Distributed computing","score":0.6065118908882141},{"id":"https://openalex.org/keywords/cloud-computing","display_name":"Cloud computing","score":0.6031251549720764},{"id":"https://openalex.org/keywords/leverage","display_name":"Leverage (statistics)","score":0.5342088937759399},{"id":"https://openalex.org/keywords/robustness","display_name":"Robustness (evolution)","score":0.52665776014328},{"id":"https://openalex.org/keywords/edge-computing","display_name":"Edge computing","score":0.4769379496574402},{"id":"https://openalex.org/keywords/overlay-network","display_name":"Overlay network","score":0.44870084524154663},{"id":"https://openalex.org/keywords/theory-of-computation","display_name":"Theory of computation","score":0.42202258110046387},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.4142676591873169},{"id":"https://openalex.org/keywords/computer-network","display_name":"Computer network","score":0.3358033299446106},{"id":"https://openalex.org/keywords/the-internet","display_name":"The Internet","score":0.21902069449424744},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.20286545157432556},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.12857022881507874}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8253877758979797},{"id":"https://openalex.org/C199845137","wikidata":"https://www.wikidata.org/wiki/Q145490","display_name":"Network topology","level":2,"score":0.6458860635757446},{"id":"https://openalex.org/C120314980","wikidata":"https://www.wikidata.org/wiki/Q180634","display_name":"Distributed computing","level":1,"score":0.6065118908882141},{"id":"https://openalex.org/C79974875","wikidata":"https://www.wikidata.org/wiki/Q483639","display_name":"Cloud computing","level":2,"score":0.6031251549720764},{"id":"https://openalex.org/C153083717","wikidata":"https://www.wikidata.org/wiki/Q6535263","display_name":"Leverage (statistics)","level":2,"score":0.5342088937759399},{"id":"https://openalex.org/C63479239","wikidata":"https://www.wikidata.org/wiki/Q7353546","display_name":"Robustness (evolution)","level":3,"score":0.52665776014328},{"id":"https://openalex.org/C2778456923","wikidata":"https://www.wikidata.org/wiki/Q5337692","display_name":"Edge computing","level":3,"score":0.4769379496574402},{"id":"https://openalex.org/C169851745","wikidata":"https://www.wikidata.org/wiki/Q1331985","display_name":"Overlay network","level":3,"score":0.44870084524154663},{"id":"https://openalex.org/C24858836","wikidata":"https://www.wikidata.org/wiki/Q844718","display_name":"Theory of computation","level":2,"score":0.42202258110046387},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.4142676591873169},{"id":"https://openalex.org/C31258907","wikidata":"https://www.wikidata.org/wiki/Q1301371","display_name":"Computer network","level":1,"score":0.3358033299446106},{"id":"https://openalex.org/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","level":2,"score":0.21902069449424744},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.20286545157432556},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.12857022881507874},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1145/3468266","is_oa":true,"landing_page_url":"https://doi.org/10.1145/3468266","pdf_url":"https://dl.acm.org/doi/pdf/10.1145/3468266","source":{"id":"https://openalex.org/S157921468","display_name":"ACM Computing Surveys","issn_l":"0360-0300","issn":["0360-0300","1557-7341"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319798","host_organization_name":"Association for Computing Machinery","host_organization_lineage":["https://openalex.org/P4310319798"],"host_organization_lineage_names":["Association for Computing Machinery"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"ACM Computing Surveys","raw_type":"journal-article"}],"best_oa_location":{"id":"doi:10.1145/3468266","is_oa":true,"landing_page_url":"https://doi.org/10.1145/3468266","pdf_url":"https://dl.acm.org/doi/pdf/10.1145/3468266","source":{"id":"https://openalex.org/S157921468","display_name":"ACM Computing Surveys","issn_l":"0360-0300","issn":["0360-0300","1557-7341"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319798","host_organization_name":"Association for Computing Machinery","host_organization_lineage":["https://openalex.org/P4310319798"],"host_organization_lineage_names":["Association for Computing Machinery"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"ACM Computing Surveys","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/7","score":0.800000011920929,"display_name":"Affordable and clean energy"}],"awards":[{"id":"https://openalex.org/G100994319","display_name":null,"funder_award_id":"2104078","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G2273632764","display_name":null,"funder_award_id":"1725755","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G2802784690","display_name":null,"funder_award_id":"1609642","funder_id":"https://openalex.org/F4320337390","funder_display_name":"Division of Chemical, Bioengineering, Environmental, and Transport Systems"},{"id":"https://openalex.org/G2919140","display_name":null,"funder_award_id":"CBET-1609642","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G3141007985","display_name":null,"funder_award_id":"OAC-2104078","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G4277973806","display_name":null,"funder_award_id":"1609642","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G6889630163","display_name":null,"funder_award_id":"1802588","funder_id":"https://openalex.org/F4320337390","funder_display_name":"Division of Chemical, Bioengineering, Environmental, and Transport Systems"},{"id":"https://openalex.org/G8149667312","display_name":null,"funder_award_id":"OAC-1725755","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320337390","display_name":"Division of Chemical, Bioengineering, Environmental, and Transport Systems","ror":"https://ror.org/0471zv972"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3203337531.pdf","grobid_xml":"https://content.openalex.org/works/W3203337531.grobid-xml"},"referenced_works_count":100,"referenced_works":["https://openalex.org/W80630432","https://openalex.org/W1525213100","https://openalex.org/W1654194294","https://openalex.org/W1797459856","https://openalex.org/W1854214752","https://openalex.org/W1964958536","https://openalex.org/W1972689932","https://openalex.org/W1976722121","https://openalex.org/W1983682811","https://openalex.org/W1987815409","https://openalex.org/W1989400610","https://openalex.org/W1989921625","https://openalex.org/W1990600049","https://openalex.org/W1990806950","https://openalex.org/W1994540622","https://openalex.org/W1995951476","https://openalex.org/W2000367271","https://openalex.org/W2008690976","https://openalex.org/W2010195483","https://openalex.org/W2013620058","https://openalex.org/W2017532337","https://openalex.org/W2020910347","https://openalex.org/W2022497687","https://openalex.org/W2023649587","https://openalex.org/W2025803032","https://openalex.org/W2026739587","https://openalex.org/W2027264060","https://openalex.org/W2033289379","https://openalex.org/W2035751541","https://openalex.org/W2035890032","https://openalex.org/W2055654205","https://openalex.org/W2056196692","https://openalex.org/W2058221907","https://openalex.org/W2059240423","https://openalex.org/W2059345864","https://openalex.org/W2060911236","https://openalex.org/W2061425021","https://openalex.org/W2062029454","https://openalex.org/W2064603612","https://openalex.org/W2070717823","https://openalex.org/W2070722739","https://openalex.org/W2072265663","https://openalex.org/W2077862183","https://openalex.org/W2085116222","https://openalex.org/W2091986800","https://openalex.org/W2093050872","https://openalex.org/W2099465311","https://openalex.org/W2100614348","https://openalex.org/W2101087742","https://openalex.org/W2104085672","https://openalex.org/W2108617448","https://openalex.org/W2109110326","https://openalex.org/W2110699703","https://openalex.org/W2110792417","https://openalex.org/W2111619626","https://openalex.org/W2112262143","https://openalex.org/W2113915527","https://openalex.org/W2113980854","https://openalex.org/W2124533460","https://openalex.org/W2126105956","https://openalex.org/W2131706188","https://openalex.org/W2135602072","https://openalex.org/W2135849804","https://openalex.org/W2136006990","https://openalex.org/W2139997707","https://openalex.org/W2142170851","https://openalex.org/W2142321063","https://openalex.org/W2142517301","https://openalex.org/W2144636447","https://openalex.org/W2148606196","https://openalex.org/W2153624566","https://openalex.org/W2156626839","https://openalex.org/W2158056453","https://openalex.org/W2160533336","https://openalex.org/W2168452204","https://openalex.org/W2170239483","https://openalex.org/W2263616427","https://openalex.org/W2398785473","https://openalex.org/W2408282413","https://openalex.org/W2577854396","https://openalex.org/W2586322277","https://openalex.org/W2613239649","https://openalex.org/W2641178619","https://openalex.org/W2762231355","https://openalex.org/W2768475350","https://openalex.org/W2775405389","https://openalex.org/W2782454362","https://openalex.org/W2789721342","https://openalex.org/W2903593678","https://openalex.org/W2910368573","https://openalex.org/W2912717503","https://openalex.org/W2915771847","https://openalex.org/W2918079314","https://openalex.org/W2978890359","https://openalex.org/W2982575771","https://openalex.org/W3008085297","https://openalex.org/W3036927699","https://openalex.org/W3151647019","https://openalex.org/W4256140420","https://openalex.org/W4298424212"],"related_works":["https://openalex.org/W2086397253","https://openalex.org/W2133122801","https://openalex.org/W600422426","https://openalex.org/W2007156430","https://openalex.org/W2170882281","https://openalex.org/W3081478936","https://openalex.org/W2159277605","https://openalex.org/W4319453177","https://openalex.org/W2079322240","https://openalex.org/W2125213906"],"abstract_inverted_index":{"The":[0,100],"advent":[1],"of":[2,24,36,94,96,98,116,128,141,152,163,173,184],"the":[3,9,16,22,25,29,52,57,131,139,160,182],"edge":[4,23],"computing":[5],"network":[6,26,46,103,108],"paradigm":[7,39],"places":[8],"computational":[10],"and":[11,19,48,78,130,145,187],"storage":[12],"resources":[13],"away":[14],"from":[15],"data":[17,73],"centers":[18],"closer":[20],"to":[21,42,62,68,138],"largely":[27],"comprising":[28],"heterogeneous":[30],"IoT":[31],"devices":[32],"collecting":[33],"huge":[34],"volumes":[35],"data.":[37],"This":[38],"has":[40],"led":[41],"considerable":[43],"improvement":[44],"in":[45,75,181],"latency":[47],"bandwidth":[49],"usage":[50],"over":[51],"traditional":[53],"cloud-centric":[54],"paradigm.":[55],"However,":[56],"next":[58],"generation":[59],"networks":[60,90],"continue":[61],"be":[63],"stymied":[64],"by":[65,88],"their":[66],"inability":[67],"achieve":[69],"adaptive,":[70],"energy-efficient,":[71],"timely":[72],"transfer":[74],"a":[76,92,106,114,150,168],"dynamic":[77],"failure-prone":[79],"environment\u2014the":[80],"very":[81],"optimization":[82],"challenges":[83],"that":[84,135,158,175],"are":[85],"dealt":[86],"with":[87],"biological":[89,107],"as":[91],"consequence":[93],"millions":[95],"years":[97],"evolution.":[99],"transcriptional":[101],"regulatory":[102],"(TRN)":[104],"is":[105,113],"whose":[109],"innate":[110],"topological":[111],"robustness":[112],"function":[115],"its":[117],"underlying":[118],"graph":[119],"topology.":[120],"In":[121],"this":[122],"article,":[123],"we":[124,166],"survey":[125],"these":[126],"properties":[127,162],"TRN":[129],"metrics":[132],"derived":[133],"therefrom":[134],"lend":[136],"themselves":[137],"design":[140],"smart":[142],"networking":[143,156],"protocols":[144],"architectures.":[146],"We":[147],"then":[148],"review":[149],"body":[151],"literature":[153],"on":[154],"bio-inspired":[155],"solutions":[157],"leverage":[159],"stated":[161],"TRN.":[164],"Finally,":[165],"present":[167],"vision":[169],"for":[170],"specific":[171],"aspects":[172],"TRNs":[174],"may":[176],"inspire":[177],"future":[178],"research":[179],"directions":[180],"fields":[183],"large-scale":[185],"social":[186],"communication":[188],"networks.":[189]},"counts_by_year":[{"year":2024,"cited_by_count":3},{"year":2022,"cited_by_count":2}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
