{"id":"https://openalex.org/W7164004653","doi":"https://doi.org/10.1007/s00422-026-01044-6","title":"Foundational issues of network models in biology","display_name":"Foundational issues of network models in biology","publication_year":2026,"publication_date":"2026-06-09","ids":{"openalex":"https://openalex.org/W7164004653","doi":"https://doi.org/10.1007/s00422-026-01044-6","pmid":"https://pubmed.ncbi.nlm.nih.gov/42265470"},"language":"en","primary_location":{"id":"doi:10.1007/s00422-026-01044-6","is_oa":true,"landing_page_url":"https://doi.org/10.1007/s00422-026-01044-6","pdf_url":"https://link.springer.com/content/pdf/10.1007/s00422-026-01044-6.pdf","source":{"id":"https://openalex.org/S87357125","display_name":"Biological Cybernetics","issn_l":"0340-1200","issn":["0340-1200","1432-0770"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Biological Cybernetics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://link.springer.com/content/pdf/10.1007/s00422-026-01044-6.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5000358136","display_name":"Danilo Bondi","orcid":"https://orcid.org/0000-0003-1911-3606"},"institutions":[{"id":"https://openalex.org/I190397597","display_name":"University of Urbino","ror":"https://ror.org/04q4kt073","country_code":"IT","type":"education","lineage":["https://openalex.org/I190397597"]},{"id":"https://openalex.org/I39387349","display_name":"University of Chieti-Pescara","ror":"https://ror.org/00qjgza05","country_code":"IT","type":"education","lineage":["https://openalex.org/I39387349"]}],"countries":["IT"],"is_corresponding":true,"raw_author_name":"Danilo Bondi","raw_affiliation_strings":["Department of Economics, Society & Politics, University of Urbino Carlo Bo, Urbino, Italy","Department of Neuroscience, Imaging and Clinical Sciences, University \"G. d'Annunzio\" Chieti-Pescara, Via Dei Vestini, 31, 66100, Chieti, Italy. danilo.bondi@unich.it"],"raw_orcid":"https://orcid.org/0000-0003-1911-3606","affiliations":[{"raw_affiliation_string":"Department of Economics, Society & Politics, University of Urbino Carlo Bo, Urbino, Italy","institution_ids":["https://openalex.org/I190397597"]},{"raw_affiliation_string":"Department of Neuroscience, Imaging and Clinical Sciences, University \"G. d'Annunzio\" Chieti-Pescara, Via Dei Vestini, 31, 66100, Chieti, Italy. danilo.bondi@unich.it","institution_ids":["https://openalex.org/I39387349"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5085078200","display_name":"Damiano Bondi","orcid":"https://orcid.org/0000-0001-8712-7044"},"institutions":[{"id":"https://openalex.org/I190397597","display_name":"University of Urbino","ror":"https://ror.org/04q4kt073","country_code":"IT","type":"education","lineage":["https://openalex.org/I190397597"]},{"id":"https://openalex.org/I39387349","display_name":"University of Chieti-Pescara","ror":"https://ror.org/00qjgza05","country_code":"IT","type":"education","lineage":["https://openalex.org/I39387349"]}],"countries":["IT"],"is_corresponding":true,"raw_author_name":"Damiano Bondi","raw_affiliation_strings":["Department of Economics, Society & Politics, University of Urbino Carlo Bo, Urbino, Italy","Department of Neuroscience, Imaging and Clinical Sciences, University \"G. d'Annunzio\" Chieti-Pescara, Via Dei Vestini, 31, 66100, Chieti, Italy. danilo.bondi@unich.it"],"raw_orcid":"https://orcid.org/0000-0001-8712-7044","affiliations":[{"raw_affiliation_string":"Department of Economics, Society & Politics, University of Urbino Carlo Bo, Urbino, Italy","institution_ids":["https://openalex.org/I190397597"]},{"raw_affiliation_string":"Department of Neuroscience, Imaging and Clinical Sciences, University \"G. d'Annunzio\" Chieti-Pescara, Via Dei Vestini, 31, 66100, Chieti, Italy. danilo.bondi@unich.it","institution_ids":["https://openalex.org/I39387349"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5000358136","https://openalex.org/A5085078200"],"corresponding_institution_ids":["https://openalex.org/I190397597","https://openalex.org/I39387349"],"apc_list":{"value":2790,"currency":"EUR","value_usd":3590},"apc_paid":{"value":2790,"currency":"EUR","value_usd":3590},"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.79991759,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"120","issue":"3-4","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.3010999858379364,"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":0.3010999858379364,"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/T13283","display_name":"Mental Health Research Topics","score":0.1151999980211258,"subfield":{"id":"https://openalex.org/subfields/3205","display_name":"Experimental and Cognitive Psychology"},"field":{"id":"https://openalex.org/fields/32","display_name":"Psychology"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}},{"id":"https://openalex.org/T12308","display_name":"Mental Health and Psychiatry","score":0.07429999858140945,"subfield":{"id":"https://openalex.org/subfields/1211","display_name":"Philosophy"},"field":{"id":"https://openalex.org/fields/12","display_name":"Arts and Humanities"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/cybernetics","display_name":"Cybernetics","score":0.72079998254776},{"id":"https://openalex.org/keywords/teleology","display_name":"Teleology","score":0.6223999857902527},{"id":"https://openalex.org/keywords/systems-biology","display_name":"Systems biology","score":0.5716000199317932},{"id":"https://openalex.org/keywords/philosophy-of-biology","display_name":"Philosophy of biology","score":0.42340001463890076},{"id":"https://openalex.org/keywords/biological-network","display_name":"Biological network","score":0.41519999504089355},{"id":"https://openalex.org/keywords/philosophical-methodology","display_name":"Philosophical methodology","score":0.3248000144958496},{"id":"https://openalex.org/keywords/complex-system","display_name":"Complex system","score":0.3050000071525574}],"concepts":[{"id":"https://openalex.org/C115286129","wikidata":"https://www.wikidata.org/wiki/Q123637","display_name":"Cybernetics","level":2,"score":0.72079998254776},{"id":"https://openalex.org/C80038905","wikidata":"https://www.wikidata.org/wiki/Q192121","display_name":"Teleology","level":2,"score":0.6223999857902527},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.6033999919891357},{"id":"https://openalex.org/C152662350","wikidata":"https://www.wikidata.org/wiki/Q815297","display_name":"Systems biology","level":2,"score":0.5716000199317932},{"id":"https://openalex.org/C188147891","wikidata":"https://www.wikidata.org/wiki/Q147638","display_name":"Cognitive science","level":1,"score":0.46860000491142273},{"id":"https://openalex.org/C180182882","wikidata":"https://www.wikidata.org/wiki/Q1028964","display_name":"Philosophy of biology","level":3,"score":0.42340001463890076},{"id":"https://openalex.org/C28225019","wikidata":"https://www.wikidata.org/wiki/Q4915005","display_name":"Biological network","level":2,"score":0.41519999504089355},{"id":"https://openalex.org/C144024400","wikidata":"https://www.wikidata.org/wiki/Q21201","display_name":"Sociology","level":0,"score":0.34380000829696655},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3357999920845032},{"id":"https://openalex.org/C539667460","wikidata":"https://www.wikidata.org/wiki/Q2414942","display_name":"Management science","level":1,"score":0.3249000012874603},{"id":"https://openalex.org/C139172840","wikidata":"https://www.wikidata.org/wiki/Q7186193","display_name":"Philosophical methodology","level":2,"score":0.3248000144958496},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.30979999899864197},{"id":"https://openalex.org/C47822265","wikidata":"https://www.wikidata.org/wiki/Q854457","display_name":"Complex system","level":2,"score":0.3050000071525574},{"id":"https://openalex.org/C34048319","wikidata":"https://www.wikidata.org/wiki/Q599967","display_name":"Autopoiesis","level":2,"score":0.3027999997138977},{"id":"https://openalex.org/C55587333","wikidata":"https://www.wikidata.org/wiki/Q1133029","display_name":"Engineering ethics","level":1,"score":0.2953999936580658},{"id":"https://openalex.org/C108426073","wikidata":"https://www.wikidata.org/wiki/Q864512","display_name":"Biocybernetics","level":3,"score":0.29190000891685486},{"id":"https://openalex.org/C36415437","wikidata":"https://www.wikidata.org/wiki/Q7663871","display_name":"Systems medicine","level":3,"score":0.29179999232292175},{"id":"https://openalex.org/C104122410","wikidata":"https://www.wikidata.org/wiki/Q1416406","display_name":"Network model","level":2,"score":0.27790001034736633},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.2775000035762787},{"id":"https://openalex.org/C20129857","wikidata":"https://www.wikidata.org/wiki/Q751611","display_name":"Mathematical and theoretical biology","level":2,"score":0.27720001339912415},{"id":"https://openalex.org/C2777560498","wikidata":"https://www.wikidata.org/wiki/Q488152","display_name":"Philosophical analysis","level":2,"score":0.2533000111579895}],"mesh":[{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003491","descriptor_name":"Cybernetics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003491","descriptor_name":"Cybernetics","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":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1007/s00422-026-01044-6","is_oa":true,"landing_page_url":"https://doi.org/10.1007/s00422-026-01044-6","pdf_url":"https://link.springer.com/content/pdf/10.1007/s00422-026-01044-6.pdf","source":{"id":"https://openalex.org/S87357125","display_name":"Biological Cybernetics","issn_l":"0340-1200","issn":["0340-1200","1432-0770"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Biological Cybernetics","raw_type":"journal-article"},{"id":"pmid:42265470","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/42265470","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":"Biological cybernetics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:13249665","is_oa":true,"landing_page_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC13249665/","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Biol Cybern","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1007/s00422-026-01044-6","is_oa":true,"landing_page_url":"https://doi.org/10.1007/s00422-026-01044-6","pdf_url":"https://link.springer.com/content/pdf/10.1007/s00422-026-01044-6.pdf","source":{"id":"https://openalex.org/S87357125","display_name":"Biological Cybernetics","issn_l":"0340-1200","issn":["0340-1200","1432-0770"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Biological Cybernetics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320323475","display_name":"Universit\u00e0 degli Studi G. d'Annunzio Chieti - Pescara","ror":"https://ror.org/00qjgza05"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W7164004653.pdf","grobid_xml":"https://content.openalex.org/works/W7164004653.grobid-xml"},"referenced_works_count":57,"referenced_works":["https://openalex.org/W845623141","https://openalex.org/W1488827633","https://openalex.org/W1496326861","https://openalex.org/W1980120783","https://openalex.org/W1992577051","https://openalex.org/W1994184160","https://openalex.org/W1997578267","https://openalex.org/W1999934606","https://openalex.org/W2001191754","https://openalex.org/W2001619147","https://openalex.org/W2005417775","https://openalex.org/W2022305914","https://openalex.org/W2037835624","https://openalex.org/W2053225543","https://openalex.org/W2074930148","https://openalex.org/W2080864550","https://openalex.org/W2115530814","https://openalex.org/W2137656921","https://openalex.org/W2139758276","https://openalex.org/W2146647455","https://openalex.org/W2158012327","https://openalex.org/W2163480486","https://openalex.org/W2330867962","https://openalex.org/W2339840868","https://openalex.org/W2428588528","https://openalex.org/W2465704269","https://openalex.org/W2499979751","https://openalex.org/W2549912534","https://openalex.org/W2555182006","https://openalex.org/W2606217062","https://openalex.org/W2910915966","https://openalex.org/W2929534475","https://openalex.org/W2962376338","https://openalex.org/W2989471587","https://openalex.org/W2999078879","https://openalex.org/W3007598106","https://openalex.org/W3131785162","https://openalex.org/W3178723040","https://openalex.org/W4206973980","https://openalex.org/W4214931690","https://openalex.org/W4225414052","https://openalex.org/W4230985595","https://openalex.org/W4246245917","https://openalex.org/W4249324557","https://openalex.org/W4256446483","https://openalex.org/W4313888023","https://openalex.org/W4317569360","https://openalex.org/W4318561883","https://openalex.org/W4376609442","https://openalex.org/W4376643505","https://openalex.org/W4388694932","https://openalex.org/W4393255268","https://openalex.org/W4399284502","https://openalex.org/W4405219149","https://openalex.org/W4416938069","https://openalex.org/W6959699581","https://openalex.org/W7135044696"],"related_works":[],"abstract_inverted_index":{"Despite":[0],"the":[1,12,52,80,83,126],"growing":[2],"prevalence":[3],"of":[4,15,33,58,86,94,125],"network":[5,72,81],"models":[6,32,73,139],"in":[7,27,46,71,74,140],"biological":[8,47],"and":[9,20,30,43,76,97,103,109,117,137],"medical":[10],"research,":[11],"philosophical":[13,56,123],"foundations":[14],"these":[16],"constructs":[17,108],"remain":[18],"elusive":[19],"insufficiently":[21],"examined.":[22],"Building":[23],"on":[24],"data-driven":[25],"insights":[26],"systems":[28],"biology":[29,63,75,102,141],"teleological":[31],"integrative":[34],"physiology,":[35],"we":[36,119],"have":[37,50],"criticised":[38],"agentless":[39],"theory,":[40],"relational":[41,66,130,138],"ontologies,":[42],"cybernetic":[44,131],"perspectives":[45],"contexts.":[48],"We":[49],"posited":[51],"necessity":[53],"for":[54,121],"a":[55,59,65,122,129],"advocacy":[57,124],"holistic":[60],"approach":[61],"to":[62],"alongside":[64],"epistemology.":[67],"A":[68],"foundational":[69],"issue":[70],"physiology":[77,104],"is":[78],"recognising":[79],"as":[82,128],"predominant":[84],"meme":[85],"contemporary":[87],"society,":[88],"which":[89],"has":[90,98],"permeated":[91],"all":[92],"aspects":[93],"human":[95],"life":[96],"been":[99],"cultivated":[100],"within":[101],"through":[105],"modern":[106],"theoretical":[107],"practical":[110],"applications.":[111],"By":[112],"discussing":[113],"minimal":[114],"cognition,":[115],"tinkering,":[116],"stigmergy,":[118],"argued":[120],"person":[127],"organism.":[132],"Philosophical":[133],"arguments":[134],"concerning":[135],"graph":[136],"can":[142],"be":[143],"resolved":[144],"by":[145],"embracing":[146],"epistemic":[147],"humility.":[148]},"counts_by_year":[],"updated_date":"2026-06-24T13:16:06.693445","created_date":"2026-06-10T00:00:00"}
