{"id":"https://openalex.org/W3186295248","doi":"https://doi.org/10.1109/jbhi.2022.3148672","title":"A Graph-Based Molecular Communications Model Analysis of the Human Gut Bacteriome","display_name":"A Graph-Based Molecular Communications Model Analysis of the Human Gut Bacteriome","publication_year":2022,"publication_date":"2022-02-04","ids":{"openalex":"https://openalex.org/W3186295248","doi":"https://doi.org/10.1109/jbhi.2022.3148672","mag":"3186295248","pmid":"https://pubmed.ncbi.nlm.nih.gov/35120016"},"language":"en","primary_location":{"id":"doi:10.1109/jbhi.2022.3148672","is_oa":false,"landing_page_url":"https://doi.org/10.1109/jbhi.2022.3148672","pdf_url":null,"source":{"id":"https://openalex.org/S2495854775","display_name":"IEEE Journal of Biomedical and Health Informatics","issn_l":"2168-2194","issn":["2168-2194","2168-2208"],"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 Journal of Biomedical and Health Informatics","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/A5069987074","display_name":"Samitha Somathilaka","orcid":"https://orcid.org/0000-0003-4675-5698"},"institutions":[{"id":"https://openalex.org/I7478328","display_name":"Waterford Institute of Technology","ror":"https://ror.org/03ypxwh20","country_code":"IE","type":"nonprofit","lineage":["https://openalex.org/I7478328"]}],"countries":["IE"],"is_corresponding":false,"raw_author_name":"Samitha S. Somathilaka","raw_affiliation_strings":["VistaMilk Research Centre, Walton Institute for Information and Communication Systems Science, Waterford Institute of Technology, Waterford, Ireland"],"raw_orcid":"https://orcid.org/0000-0003-4675-5698","affiliations":[{"raw_affiliation_string":"VistaMilk Research Centre, Walton Institute for Information and Communication Systems Science, Waterford Institute of Technology, Waterford, Ireland","institution_ids":["https://openalex.org/I7478328"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5059667813","display_name":"Daniel P. Martins","orcid":"https://orcid.org/0000-0002-2204-3082"},"institutions":[{"id":"https://openalex.org/I7478328","display_name":"Waterford Institute of Technology","ror":"https://ror.org/03ypxwh20","country_code":"IE","type":"nonprofit","lineage":["https://openalex.org/I7478328"]}],"countries":["IE"],"is_corresponding":false,"raw_author_name":"Daniel P. Martins","raw_affiliation_strings":["VistaMilk Research Centre, Walton Institute for Information and Communication Systems Science, Waterford Institute of Technology, Waterford, Ireland"],"raw_orcid":"https://orcid.org/0000-0002-2204-3082","affiliations":[{"raw_affiliation_string":"VistaMilk Research Centre, Walton Institute for Information and Communication Systems Science, Waterford Institute of Technology, Waterford, Ireland","institution_ids":["https://openalex.org/I7478328"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5013727980","display_name":"Wiley Barton","orcid":"https://orcid.org/0000-0003-0686-3491"},"institutions":[{"id":"https://openalex.org/I141766778","display_name":"Teagasc - The Irish Agriculture and Food Development Authority","ror":"https://ror.org/03sx84n71","country_code":"IE","type":"facility","lineage":["https://openalex.org/I141766778"]}],"countries":["IE"],"is_corresponding":false,"raw_author_name":"Wiley Barton","raw_affiliation_strings":["VistaMilk Research Centre, Teagasc, Food Research Centre, Moorepark, Ireland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"VistaMilk Research Centre, Teagasc, Food Research Centre, Moorepark, Ireland","institution_ids":["https://openalex.org/I141766778"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5045979403","display_name":"\u00d3rla O\u2019Sullivan","orcid":"https://orcid.org/0000-0002-4332-1109"},"institutions":[{"id":"https://openalex.org/I141766778","display_name":"Teagasc - The Irish Agriculture and Food Development Authority","ror":"https://ror.org/03sx84n71","country_code":"IE","type":"facility","lineage":["https://openalex.org/I141766778"]}],"countries":["IE"],"is_corresponding":false,"raw_author_name":"Orla O'Sullivan","raw_affiliation_strings":["VistaMilk Research Centre, Teagasc, Food Research Centre, Moorepark, Ireland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"VistaMilk Research Centre, Teagasc, Food Research Centre, Moorepark, Ireland","institution_ids":["https://openalex.org/I141766778"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5050465932","display_name":"Paul D. Cotter","orcid":"https://orcid.org/0000-0002-5465-9068"},"institutions":[{"id":"https://openalex.org/I141766778","display_name":"Teagasc - The Irish Agriculture and Food Development Authority","ror":"https://ror.org/03sx84n71","country_code":"IE","type":"facility","lineage":["https://openalex.org/I141766778"]}],"countries":["IE"],"is_corresponding":false,"raw_author_name":"Paul D. Cotter","raw_affiliation_strings":["VistaMilk Research Centre, Teagasc, Food Research Centre, Moorepark, Ireland"],"raw_orcid":"https://orcid.org/0000-0002-5465-9068","affiliations":[{"raw_affiliation_string":"VistaMilk Research Centre, Teagasc, Food Research Centre, Moorepark, Ireland","institution_ids":["https://openalex.org/I141766778"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5077005247","display_name":"Sasitharan Balasubramaniam","orcid":"https://orcid.org/0000-0003-4022-3615"},"institutions":[{"id":"https://openalex.org/I114395901","display_name":"University of Nebraska\u2013Lincoln","ror":"https://ror.org/043mer456","country_code":"US","type":"education","lineage":["https://openalex.org/I114395901"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Sasitharan Balasubramaniam","raw_affiliation_strings":["School of Computing, University of Nebraska-Lincoln, Lincoln, NE, USA"],"raw_orcid":"https://orcid.org/0000-0003-4022-3615","affiliations":[{"raw_affiliation_string":"School of Computing, University of Nebraska-Lincoln, Lincoln, NE, USA","institution_ids":["https://openalex.org/I114395901"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":6,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.6538,"has_fulltext":false,"cited_by_count":8,"citation_normalized_percentile":{"value":0.61690683,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":97},"biblio":{"volume":"26","issue":"7","first_page":"3567","last_page":"3577"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T13052","display_name":"Molecular Communication and Nanonetworks","score":0.9997000098228455,"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"}},"topics":[{"id":"https://openalex.org/T13052","display_name":"Molecular Communication and Nanonetworks","score":0.9997000098228455,"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9957000017166138,"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/T10885","display_name":"Gene expression and cancer classification","score":0.9898999929428101,"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":0.6605892181396484},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.4815250039100647},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3417418897151947},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.2421952784061432},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.21182003617286682}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6605892181396484},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.4815250039100647},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3417418897151947},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.2421952784061432},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.21182003617286682}],"mesh":[{"descriptor_ui":"D003142","descriptor_name":"Communication","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003142","descriptor_name":"Communication","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003142","descriptor_name":"Communication","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1109/jbhi.2022.3148672","is_oa":false,"landing_page_url":"https://doi.org/10.1109/jbhi.2022.3148672","pdf_url":null,"source":{"id":"https://openalex.org/S2495854775","display_name":"IEEE Journal of Biomedical and Health Informatics","issn_l":"2168-2194","issn":["2168-2194","2168-2208"],"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 Journal of Biomedical and Health Informatics","raw_type":"journal-article"},{"id":"pmid:35120016","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/35120016","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 journal of biomedical and health informatics","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being","score":0.75}],"awards":[],"funders":[{"id":"https://openalex.org/F4320320831","display_name":"Department of Agriculture, Food and the Marine, Ireland","ror":"https://ror.org/008gjgb19"},{"id":"https://openalex.org/F4320320847","display_name":"Science Foundation Ireland","ror":"https://ror.org/0271asj38"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":54,"referenced_works":["https://openalex.org/W816410171","https://openalex.org/W1420654867","https://openalex.org/W1912497050","https://openalex.org/W1965775065","https://openalex.org/W1993626874","https://openalex.org/W1997031487","https://openalex.org/W2002601103","https://openalex.org/W2003788503","https://openalex.org/W2012376485","https://openalex.org/W2043773237","https://openalex.org/W2052547316","https://openalex.org/W2058838341","https://openalex.org/W2065010232","https://openalex.org/W2087279790","https://openalex.org/W2110936821","https://openalex.org/W2125287028","https://openalex.org/W2128601422","https://openalex.org/W2156591001","https://openalex.org/W2159482845","https://openalex.org/W2168002711","https://openalex.org/W2236332835","https://openalex.org/W2280966365","https://openalex.org/W2426632426","https://openalex.org/W2470512478","https://openalex.org/W2520975117","https://openalex.org/W2554414794","https://openalex.org/W2604323123","https://openalex.org/W2605052214","https://openalex.org/W2609927313","https://openalex.org/W2624193268","https://openalex.org/W2625207619","https://openalex.org/W2732597986","https://openalex.org/W2742474204","https://openalex.org/W2775850469","https://openalex.org/W2887509155","https://openalex.org/W2908925932","https://openalex.org/W2913914265","https://openalex.org/W2944268584","https://openalex.org/W2949435898","https://openalex.org/W2952437732","https://openalex.org/W2963911599","https://openalex.org/W2969718750","https://openalex.org/W2977147244","https://openalex.org/W2977433364","https://openalex.org/W2996249903","https://openalex.org/W3027262121","https://openalex.org/W3087332590","https://openalex.org/W3096828292","https://openalex.org/W3100991707","https://openalex.org/W3105703101","https://openalex.org/W3110621449","https://openalex.org/W4230770774","https://openalex.org/W4294216483","https://openalex.org/W4297662257"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2899084033","https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W4391913857","https://openalex.org/W2358668433","https://openalex.org/W4396701345","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W4396696052"],"abstract_inverted_index":{"Alterations":[0],"in":[1,28,32,84,112,144],"the":[2,29,35,41,48,75,78,85,113,118,126,137,140,145,164,173,178,188],"human":[3,11,36,49,86,141,153,165],"Gut":[4],"Bacteriome":[5],"(GB)":[6],"can":[7,25,157,176],"be":[8],"associated":[9],"with":[10],"health":[12],"issues,":[13],"such":[14],"as":[15,108],"type-2":[16],"diabetes":[17],"and":[18,22,31,52,103,180,195],"obesity.":[19],"Both":[20],"external":[21],"internal":[23],"factors":[24],"drive":[26],"changes":[27],"composition":[30,138],"interactions":[33],"of":[34,77,95,139,163,182,191,197],"GB,":[37],"impacting":[38],"negatively":[39],"on":[40,47,117,168,187],"host":[42],"cells.":[43],"This":[44],"paper":[45],"focuses":[46],"GB":[50,87,142,154,166,175],"metabolism":[51],"proposes":[53],"a":[54],"two-layer":[55],"network":[56,88,143],"system":[57],"to":[58,73,159],"investigate":[59],"its":[60],"dynamics.":[61],"Furthermore,":[62],"we":[63,123],"develop":[64],"an":[65,105],"in-silico":[66],"simulation":[67],"model":[68,156],"(virtual":[69],"GB),":[70],"allowing":[71],"us":[72],"study":[74],"impact":[76],"metabolite":[79,127],"exchange":[80,196],"through":[81],"molecular":[82,96,120,128,169],"communications":[83],"system.":[89],"Our":[90],"results":[91,149],"show":[92,124],"that":[93,125,151],"regulation":[94],"inputs":[97],"strongly":[98],"affects":[99],"bacterial":[100,192],"population":[101,193],"growth":[102,194],"creates":[104],"unbalanced":[106],"network,":[107],"shown":[109],"by":[110],"shifts":[111],"node":[114],"weights":[115],"based":[116,186],"produced":[119],"signals.":[121],"Additionally,":[122],"communication":[129],"production":[130],"is":[131],"greatly":[132],"affected":[133],"when":[134],"directly":[135],"manipulating":[136],"virtual":[146,174],"GB.":[147],"These":[148],"indicate":[150],"our":[152],"interaction":[155],"help":[158],"identify":[160],"hidden":[161],"behaviours":[162],"depending":[167],"signal":[170],"interactions.":[171],"Moreover,":[172],"support":[177],"research":[179],"development":[181],"novel":[183],"medical":[184],"treatments":[185],"accurate":[189],"control":[190],"metabolites.":[198]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":3}],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2025-10-10T00:00:00"}
