{"id":"https://openalex.org/W4410793101","doi":"https://doi.org/10.1002/qub2.70007","title":"Computational systems biology approaches to cellular aging\u2014Integrating network maps and dynamical models","display_name":"Computational systems biology approaches to cellular aging\u2014Integrating network maps and dynamical models","publication_year":2025,"publication_date":"2025-05-26","ids":{"openalex":"https://openalex.org/W4410793101","doi":"https://doi.org/10.1002/qub2.70007","pmid":"https://pubmed.ncbi.nlm.nih.gov/40697249"},"language":"en","primary_location":{"id":"doi:10.1002/qub2.70007","is_oa":true,"landing_page_url":"https://doi.org/10.1002/qub2.70007","pdf_url":"https://onlinelibrary.wiley.com/doi/pdfdirect/10.1002/qub2.70007","source":{"id":"https://openalex.org/S4210172333","display_name":"Quantitative Biology","issn_l":"2095-4689","issn":["2095-4689","2095-4697"],"is_oa":true,"is_in_doaj":true,"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":"Quantitative Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://onlinelibrary.wiley.com/doi/pdfdirect/10.1002/qub2.70007","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5060240798","display_name":"Hetian Su","orcid":null},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Hetian Su","raw_affiliation_strings":["Department of Molecular Biology School of Biological Sciences University of California San Diego  La Jolla California USA","Department of Molecular Biology, School of Biological Sciences, University of California San Diego, La Jolla, California, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular Biology School of Biological Sciences University of California San Diego  La Jolla California USA","institution_ids":["https://openalex.org/I36258959"]},{"raw_affiliation_string":"Department of Molecular Biology, School of Biological Sciences, University of California San Diego, La Jolla, California, USA","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5047936092","display_name":"Nan Hao","orcid":"https://orcid.org/0000-0003-2857-4789"},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]},{"id":"https://openalex.org/I4210133661","display_name":"La Jolla Bioengineering Institute","ror":"https://ror.org/03sgbh608","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210133661"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Nan Hao","raw_affiliation_strings":["Department of Bioengineering University of California San Diego  La Jolla California USA","Department of Molecular Biology School of Biological Sciences University of California San Diego  La Jolla California USA","Synthetic Biology Institute University of California San Diego  La Jolla California USA","Department of Bioengineering, University of California San Diego, La Jolla, California, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Bioengineering University of California San Diego  La Jolla California USA","institution_ids":["https://openalex.org/I36258959","https://openalex.org/I4210133661"]},{"raw_affiliation_string":"Department of Molecular Biology School of Biological Sciences University of California San Diego  La Jolla California USA","institution_ids":["https://openalex.org/I36258959"]},{"raw_affiliation_string":"Synthetic Biology Institute University of California San Diego  La Jolla California USA","institution_ids":["https://openalex.org/I36258959"]},{"raw_affiliation_string":"Department of Bioengineering, University of California San Diego, La Jolla, California, USA","institution_ids":["https://openalex.org/I36258959"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5047936092"],"corresponding_institution_ids":["https://openalex.org/I36258959","https://openalex.org/I4210133661"],"apc_list":{"value":1990,"currency":"USD","value_usd":1990},"apc_paid":{"value":1990,"currency":"USD","value_usd":1990},"fwci":1.2652,"has_fulltext":true,"cited_by_count":3,"citation_normalized_percentile":{"value":0.78234978,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":98},"biblio":{"volume":"13","issue":"4","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9965000152587891,"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":0.9965000152587891,"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/T10676","display_name":"Genetics, Aging, and Longevity in Model Organisms","score":0.9914000034332275,"subfield":{"id":"https://openalex.org/subfields/1302","display_name":"Aging"},"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9851999878883362,"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/systems-biology","display_name":"Systems biology","score":0.5993816256523132},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.46768099069595337},{"id":"https://openalex.org/keywords/modelling-biological-systems","display_name":"Modelling biological systems","score":0.45982009172439575},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4272298514842987},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3935231864452362}],"concepts":[{"id":"https://openalex.org/C152662350","wikidata":"https://www.wikidata.org/wiki/Q815297","display_name":"Systems biology","level":2,"score":0.5993816256523132},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.46768099069595337},{"id":"https://openalex.org/C137866125","wikidata":"https://www.wikidata.org/wiki/Q4299308","display_name":"Modelling biological systems","level":3,"score":0.45982009172439575},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4272298514842987},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3935231864452362}],"mesh":[],"locations_count":4,"locations":[{"id":"doi:10.1002/qub2.70007","is_oa":true,"landing_page_url":"https://doi.org/10.1002/qub2.70007","pdf_url":"https://onlinelibrary.wiley.com/doi/pdfdirect/10.1002/qub2.70007","source":{"id":"https://openalex.org/S4210172333","display_name":"Quantitative Biology","issn_l":"2095-4689","issn":["2095-4689","2095-4697"],"is_oa":true,"is_in_doaj":true,"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":"Quantitative Biology","raw_type":"journal-article"},{"id":"pmid:40697249","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40697249","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":"Quantitative biology (Beijing, China)","raw_type":null},{"id":"pmh:oai:doaj.org/article:d2aba16b6b5348b990f2f360c1205423","is_oa":true,"landing_page_url":"https://doaj.org/article/d2aba16b6b5348b990f2f360c1205423","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Quantitative Biology, Vol 13, Iss 4, Pp n/a-n/a (2025)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:11693150","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/12277577","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"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":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1002/qub2.70007","is_oa":true,"landing_page_url":"https://doi.org/10.1002/qub2.70007","pdf_url":"https://onlinelibrary.wiley.com/doi/pdfdirect/10.1002/qub2.70007","source":{"id":"https://openalex.org/S4210172333","display_name":"Quantitative Biology","issn_l":"2095-4689","issn":["2095-4689","2095-4697"],"is_oa":true,"is_in_doaj":true,"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":"Quantitative Biology","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2573548193","display_name":null,"funder_award_id":"R01 AG086348","funder_id":"https://openalex.org/F4320337337","funder_display_name":"National Institute on Aging"},{"id":"https://openalex.org/G3185129694","display_name":null,"funder_award_id":"R01AG068112","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G4157391660","display_name":null,"funder_award_id":"R01GM144595","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G4246974239","display_name":null,"funder_award_id":"R01AG056440","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G5025706394","display_name":null,"funder_award_id":"R01AG086348","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G6072674921","display_name":null,"funder_award_id":"R01 GM144595","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G8074115912","display_name":null,"funder_award_id":"R01 AG068112","funder_id":"https://openalex.org/F4320337337","funder_display_name":"National Institute on Aging"},{"id":"https://openalex.org/G8835811235","display_name":null,"funder_award_id":"R01 AG056440","funder_id":"https://openalex.org/F4320337337","funder_display_name":"National Institute on Aging"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337337","display_name":"National Institute on Aging","ror":"https://ror.org/049v75w11"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4410793101.pdf","grobid_xml":"https://content.openalex.org/works/W4410793101.grobid-xml"},"referenced_works_count":95,"referenced_works":["https://openalex.org/W1273623114","https://openalex.org/W1812816875","https://openalex.org/W1963578989","https://openalex.org/W1964464000","https://openalex.org/W1965479796","https://openalex.org/W1967025628","https://openalex.org/W1969154599","https://openalex.org/W1977789101","https://openalex.org/W1980341945","https://openalex.org/W1986339417","https://openalex.org/W1988545801","https://openalex.org/W1993488597","https://openalex.org/W1996264210","https://openalex.org/W2010583480","https://openalex.org/W2027272551","https://openalex.org/W2045441603","https://openalex.org/W2053404809","https://openalex.org/W2054791517","https://openalex.org/W2061425021","https://openalex.org/W2065304353","https://openalex.org/W2080094749","https://openalex.org/W2090595204","https://openalex.org/W2090732700","https://openalex.org/W2097389802","https://openalex.org/W2098807172","https://openalex.org/W2100850281","https://openalex.org/W2106362845","https://openalex.org/W2109110326","https://openalex.org/W2110699703","https://openalex.org/W2111322904","https://openalex.org/W2123733630","https://openalex.org/W2129079547","https://openalex.org/W2132997183","https://openalex.org/W2139601198","https://openalex.org/W2143730031","https://openalex.org/W2146997276","https://openalex.org/W2150686846","https://openalex.org/W2151936673","https://openalex.org/W2153624566","https://openalex.org/W2155735073","https://openalex.org/W2156499012","https://openalex.org/W2156684470","https://openalex.org/W2159218555","https://openalex.org/W2159222222","https://openalex.org/W2160740947","https://openalex.org/W2161174387","https://openalex.org/W2171327609","https://openalex.org/W2171667805","https://openalex.org/W2186330137","https://openalex.org/W2240518777","https://openalex.org/W2295124130","https://openalex.org/W2304538537","https://openalex.org/W2332299886","https://openalex.org/W2462122816","https://openalex.org/W2470958832","https://openalex.org/W2522417827","https://openalex.org/W2528055985","https://openalex.org/W2611370172","https://openalex.org/W2735470975","https://openalex.org/W2756220382","https://openalex.org/W2774418701","https://openalex.org/W2790167731","https://openalex.org/W2891906292","https://openalex.org/W2897007607","https://openalex.org/W2921688087","https://openalex.org/W2921893753","https://openalex.org/W2951086237","https://openalex.org/W2951969649","https://openalex.org/W2955656412","https://openalex.org/W2960230553","https://openalex.org/W2961272871","https://openalex.org/W2965177839","https://openalex.org/W2972781959","https://openalex.org/W2990778225","https://openalex.org/W2991063431","https://openalex.org/W2998467274","https://openalex.org/W3006724414","https://openalex.org/W3014040695","https://openalex.org/W3018432144","https://openalex.org/W3028006850","https://openalex.org/W3043302462","https://openalex.org/W3044545252","https://openalex.org/W3087056844","https://openalex.org/W3128612990","https://openalex.org/W3147103051","https://openalex.org/W3202134912","https://openalex.org/W3202239352","https://openalex.org/W4286008101","https://openalex.org/W4300979612","https://openalex.org/W4313531093","https://openalex.org/W4366278330","https://openalex.org/W4367173695","https://openalex.org/W4399886706","https://openalex.org/W4401821585","https://openalex.org/W4402977972"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W4386563820","https://openalex.org/W631732704","https://openalex.org/W1968058641","https://openalex.org/W2155261113","https://openalex.org/W1748979965","https://openalex.org/W2057769265","https://openalex.org/W3199870583","https://openalex.org/W5284979","https://openalex.org/W4245853730"],"abstract_inverted_index":{"Abstract":[0],"Cellular":[1],"aging":[2,35,53,63,152,166,203],"is":[3],"a":[4,131,154,186],"multifaceted":[5],"complex":[6,62,92],"process.":[7],"Many":[8],"genes":[9,22],"and":[10,23,29,59,75,86,121,162,182,190,200],"factors":[11,24],"have":[12],"been":[13],"identified":[14],"that":[15,78,104,125,143],"regulate":[16],"cellular":[17,151,194],"aging.":[18,195],"However,":[19],"how":[20,30],"these":[21,31,148],"interact":[25],"with":[26,153],"one":[27],"another":[28],"interactions":[32],"drive":[33],"the":[34,68,81,106,116,127,145,158,164],"processes":[36],"in":[37,130,160,202],"single":[38],"cells":[39],"remain":[40],"largely":[41],"unclear.":[42],"Recently,":[43],"computational":[44],"systems":[45,93],"biology":[46],"has":[47],"demonstrated":[48],"its":[49],"potential":[50,176],"to":[51,150],"empower":[52],"research":[54,204],"by":[55],"providing":[56],"quantitative":[57],"descriptions":[58],"explanations":[60],"of":[61,72,83,108,115,118,134,147,167,193],"phenotypes,":[64],"mechanistic":[65],"insights":[66],"into":[67,98],"emergent":[69],"dynamic":[70],"properties":[71],"regulatory":[73],"networks,":[74],"testable":[76],"predictions":[77],"can":[79,95],"guide":[80],"design":[82],"new":[84],"experiments":[85],"interventional":[87],"strategies.":[88],"In":[89,137],"general,":[90],"current":[91],"approaches":[94,149,207],"be":[96,209],"categorized":[97],"two":[99],"types:":[100],"(1)":[101],"network":[102,180],"maps":[103,181],"depict":[105],"topologies":[107],"large\u2010scale":[109],"molecular":[110],"networks":[111],"without":[112],"detailed":[113],"characterization":[114],"dynamics":[117],"individual":[119],"components":[120],"(2)":[122],"dynamical":[123,183],"models":[124,184],"describe":[126],"temporal":[128],"behavior":[129],"particular":[132],"set":[133],"interacting":[135],"factors.":[136],"this":[138],"review,":[139],"we":[140,197],"discuss":[141],"examples":[142],"showcase":[144],"application":[146],"specific":[155],"focus":[156],"on":[157],"progress":[159],"quantifying":[161],"modeling":[163],"replicative":[165],"budding":[168],"yeast":[169],"Saccharomyces":[170],"cerevisiae":[171],".":[172],"We":[173],"further":[174],"propose":[175],"strategies":[177],"for":[178],"integrating":[179],"toward":[185],"more":[187],"comprehensive,":[188],"mechanistic,":[189],"predictive":[191],"understanding":[192],"Finally,":[196],"outline":[198],"directions":[199],"questions":[201],"where":[205],"systems\u2010level":[206],"may":[208],"especially":[210],"powerful.":[211]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":1}],"updated_date":"2026-07-23T08:03:31.855105","created_date":"2025-10-10T00:00:00"}