{"id":"https://openalex.org/W4410275031","doi":"https://doi.org/10.1002/aisy.202500036","title":"R\u2010APEX: A Knowledge Graph\u2013Based Platform for the Elucidation of the Toxicological Mechanisms of Ambient Particulate Matter","display_name":"R\u2010APEX: A Knowledge Graph\u2013Based Platform for the Elucidation of the Toxicological Mechanisms of Ambient Particulate Matter","publication_year":2025,"publication_date":"2025-05-11","ids":{"openalex":"https://openalex.org/W4410275031","doi":"https://doi.org/10.1002/aisy.202500036"},"language":"en","primary_location":{"id":"doi:10.1002/aisy.202500036","is_oa":true,"landing_page_url":"https://doi.org/10.1002/aisy.202500036","pdf_url":"https://onlinelibrary.wiley.com/doi/pdfdirect/10.1002/aisy.202500036","source":{"id":"https://openalex.org/S4210212817","display_name":"Advanced Intelligent Systems","issn_l":"2640-4567","issn":["2640-4567"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320595","host_organization_name":"Wiley","host_organization_lineage":["https://openalex.org/P4310320595"],"host_organization_lineage_names":["Wiley"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Advanced Intelligent Systems","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://onlinelibrary.wiley.com/doi/pdfdirect/10.1002/aisy.202500036","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5028529640","display_name":"Zhixing Zhu","orcid":"https://orcid.org/0000-0002-3933-1814"},"institutions":[{"id":"https://openalex.org/I183067930","display_name":"Shanghai Jiao Tong University","ror":"https://ror.org/0220qvk04","country_code":"CN","type":"education","lineage":["https://openalex.org/I183067930"]},{"id":"https://openalex.org/I4210159420","display_name":"Shanghai Children's Hospital","ror":"https://ror.org/05pea1m70","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210159420"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhixing Zhu","raw_affiliation_strings":["Shanghai Engineering Research Center for Big Data in Pediatric Precision Medicine Center for Biomedical Informatics Shanghai Children's Hospital; School of Medicine Shanghai Jiao Tong University  Shanghai 200062 China"],"raw_orcid":"https://orcid.org/0000-0002-3933-1814","affiliations":[{"raw_affiliation_string":"Shanghai Engineering Research Center for Big Data in Pediatric Precision Medicine Center for Biomedical Informatics Shanghai Children's Hospital; School of Medicine Shanghai Jiao Tong University  Shanghai 200062 China","institution_ids":["https://openalex.org/I4210159420","https://openalex.org/I183067930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5057511056","display_name":"Jingcheng Yang","orcid":"https://orcid.org/0000-0002-2550-3910"},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"Jingcheng Yang","raw_affiliation_strings":["Greater Bay Area Institute of Precision Medicine  115 Jiaoxi Road Guangzhou 511458 China"],"raw_orcid":"https://orcid.org/0000-0002-2550-3910","affiliations":[{"raw_affiliation_string":"Greater Bay Area Institute of Precision Medicine  115 Jiaoxi Road Guangzhou 511458 China","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100358282","display_name":"Xiaofei Li","orcid":"https://orcid.org/0000-0001-6968-6256"},"institutions":[{"id":"https://openalex.org/I176134282","display_name":"Guilin Medical University","ror":"https://ror.org/000prga03","country_code":"CN","type":"education","lineage":["https://openalex.org/I176134282"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xiaofei Li","raw_affiliation_strings":["Department of Epidemiology and Statistics, School of Public Health Guilin Medical University  Guangxi 541199 China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Epidemiology and Statistics, School of Public Health Guilin Medical University  Guangxi 541199 China","institution_ids":["https://openalex.org/I176134282"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Zhijie Zheng","orcid":null},"institutions":[{"id":"https://openalex.org/I4210113495","display_name":"Children's Hospital of Zhejiang University","ror":"https://ror.org/025fyfd20","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210113495"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhijie Zheng","raw_affiliation_strings":["Cardiac Intensive Care Unit (CICU) Children's Hospital of Zhejiang University School of Medicine  Hangzhou 310057 China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Cardiac Intensive Care Unit (CICU) Children's Hospital of Zhejiang University School of Medicine  Hangzhou 310057 China","institution_ids":["https://openalex.org/I4210113495"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5042164062","display_name":"Georgi Z. Genchev","orcid":"https://orcid.org/0000-0002-3281-9104"},"institutions":[{"id":"https://openalex.org/I158708052","display_name":"Chulalongkorn University","ror":"https://ror.org/028wp3y58","country_code":"TH","type":"education","lineage":["https://openalex.org/I158708052"]}],"countries":["TH"],"is_corresponding":false,"raw_author_name":"Georgi Z. Genchev","raw_affiliation_strings":["Center for Artificial Intelligence in Medicine Faculty of Medicine Chulalongkorn University  Bangkok 10330 Thailand","Center of Excellence in Computational Molecular Biology Faculty of Medicine Chulalongkorn University  Bangkok 10330 Thailand"],"raw_orcid":"https://orcid.org/0000-0002-3281-9104","affiliations":[{"raw_affiliation_string":"Center for Artificial Intelligence in Medicine Faculty of Medicine Chulalongkorn University  Bangkok 10330 Thailand","institution_ids":["https://openalex.org/I158708052"]},{"raw_affiliation_string":"Center of Excellence in Computational Molecular Biology Faculty of Medicine Chulalongkorn University  Bangkok 10330 Thailand","institution_ids":["https://openalex.org/I158708052"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5013311977","display_name":"Yuchen Ye","orcid":"https://orcid.org/0009-0001-4270-6373"},"institutions":[{"id":"https://openalex.org/I4210135985","display_name":"Shanghai University of Medicine and Health Sciences","ror":"https://ror.org/03ns6aq57","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210135985"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yuchen Ye","raw_affiliation_strings":["Department of Research Department of Pathology Shanghai University of Medicine &amp; Health Sciences Affiliated Zhoupu Hospital  1500 Zhouyuan Road Shanghai 201318 China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Research Department of Pathology Shanghai University of Medicine &amp; Health Sciences Affiliated Zhoupu Hospital  1500 Zhouyuan Road Shanghai 201318 China","institution_ids":["https://openalex.org/I4210135985"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5050333645","display_name":"Liang Liu","orcid":"https://orcid.org/0000-0001-8529-8886"},"institutions":[{"id":"https://openalex.org/I157773358","display_name":"Sun Yat-sen University","ror":"https://ror.org/0064kty71","country_code":"CN","type":"education","lineage":["https://openalex.org/I157773358"]},{"id":"https://openalex.org/I24943067","display_name":"Fudan University","ror":"https://ror.org/013q1eq08","country_code":"CN","type":"education","lineage":["https://openalex.org/I24943067"]},{"id":"https://openalex.org/I4210127074","display_name":"Zhongshan Hospital","ror":"https://ror.org/032x22645","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210127074"]},{"id":"https://openalex.org/I4210128921","display_name":"The First Affiliated Hospital, Sun Yat-sen University","ror":"https://ror.org/037p24858","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210128921"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Liang Liu","raw_affiliation_strings":["Clinical Research Unit Institute of Clinical Science Zhongshan Hospital of Fudan University  Shanghai 200032 China"],"raw_orcid":"https://orcid.org/0000-0001-8529-8886","affiliations":[{"raw_affiliation_string":"Clinical Research Unit Institute of Clinical Science Zhongshan Hospital of Fudan University  Shanghai 200032 China","institution_ids":["https://openalex.org/I4210128921","https://openalex.org/I4210127074","https://openalex.org/I24943067","https://openalex.org/I157773358"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5079212492","display_name":"Zihan Ran","orcid":"https://orcid.org/0000-0002-2862-5497"},"institutions":[{"id":"https://openalex.org/I4210135985","display_name":"Shanghai University of Medicine and Health Sciences","ror":"https://ror.org/03ns6aq57","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210135985"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Zihan Ran","raw_affiliation_strings":["Department of Research Department of Pathology Shanghai University of Medicine &amp; Health Sciences Affiliated Zhoupu Hospital  1500 Zhouyuan Road Shanghai 201318 China","Inspection and Quarantine Department The College of Medical Technology Shanghai University of Medicine &amp; Health Sciences  279 Zhouzhu Road Shanghai 201318 China"],"raw_orcid":"https://orcid.org/0000-0002-2862-5497","affiliations":[{"raw_affiliation_string":"Department of Research Department of Pathology Shanghai University of Medicine &amp; Health Sciences Affiliated Zhoupu Hospital  1500 Zhouyuan Road Shanghai 201318 China","institution_ids":["https://openalex.org/I4210135985"]},{"raw_affiliation_string":"Inspection and Quarantine Department The College of Medical Technology Shanghai University of Medicine &amp; Health Sciences  279 Zhouzhu Road Shanghai 201318 China","institution_ids":["https://openalex.org/I4210135985"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":8,"corresponding_author_ids":["https://openalex.org/A5050333645","https://openalex.org/A5057511056","https://openalex.org/A5079212492"],"corresponding_institution_ids":["https://openalex.org/I157773358","https://openalex.org/I24943067","https://openalex.org/I4210127074","https://openalex.org/I4210128921","https://openalex.org/I4210135985"],"apc_list":{"value":2750,"currency":"USD","value_usd":2750},"apc_paid":{"value":2750,"currency":"USD","value_usd":2750},"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.04215374,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"7","issue":"11","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T14351","display_name":"Statistical and Computational Modeling","score":0.968999981880188,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T14351","display_name":"Statistical and Computational Modeling","score":0.968999981880188,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T13297","display_name":"History and advancements in chemistry","score":0.961899995803833,"subfield":{"id":"https://openalex.org/subfields/1606","display_name":"Physical and Theoretical Chemistry"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.9606000185012817,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/apex","display_name":"Apex (geometry)","score":0.6413015127182007},{"id":"https://openalex.org/keywords/particulates","display_name":"Particulates","score":0.6054338812828064},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.41141659021377563},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.39992767572402954},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.22704291343688965},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.16160660982131958},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.12063756585121155},{"id":"https://openalex.org/keywords/geometry","display_name":"Geometry","score":0.10303038358688354},{"id":"https://openalex.org/keywords/organic-chemistry","display_name":"Organic chemistry","score":0.06278249621391296}],"concepts":[{"id":"https://openalex.org/C67139541","wikidata":"https://www.wikidata.org/wiki/Q2858200","display_name":"Apex (geometry)","level":2,"score":0.6413015127182007},{"id":"https://openalex.org/C24245907","wikidata":"https://www.wikidata.org/wiki/Q498957","display_name":"Particulates","level":2,"score":0.6054338812828064},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.41141659021377563},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.39992767572402954},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.22704291343688965},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.16160660982131958},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.12063756585121155},{"id":"https://openalex.org/C2524010","wikidata":"https://www.wikidata.org/wiki/Q8087","display_name":"Geometry","level":1,"score":0.10303038358688354},{"id":"https://openalex.org/C178790620","wikidata":"https://www.wikidata.org/wiki/Q11351","display_name":"Organic chemistry","level":1,"score":0.06278249621391296}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1002/aisy.202500036","is_oa":true,"landing_page_url":"https://doi.org/10.1002/aisy.202500036","pdf_url":"https://onlinelibrary.wiley.com/doi/pdfdirect/10.1002/aisy.202500036","source":{"id":"https://openalex.org/S4210212817","display_name":"Advanced Intelligent Systems","issn_l":"2640-4567","issn":["2640-4567"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320595","host_organization_name":"Wiley","host_organization_lineage":["https://openalex.org/P4310320595"],"host_organization_lineage_names":["Wiley"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Advanced Intelligent Systems","raw_type":"journal-article"},{"id":"pmh:oai:doaj.org/article:206d3adbaf3d40cfa367ea5166d05766","is_oa":true,"landing_page_url":"https://doaj.org/article/206d3adbaf3d40cfa367ea5166d05766","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":"Advanced Intelligent Systems, Vol 7, Iss 11, Pp n/a-n/a (2025)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1002/aisy.202500036","is_oa":true,"landing_page_url":"https://doi.org/10.1002/aisy.202500036","pdf_url":"https://onlinelibrary.wiley.com/doi/pdfdirect/10.1002/aisy.202500036","source":{"id":"https://openalex.org/S4210212817","display_name":"Advanced Intelligent Systems","issn_l":"2640-4567","issn":["2640-4567"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320595","host_organization_name":"Wiley","host_organization_lineage":["https://openalex.org/P4310320595"],"host_organization_lineage_names":["Wiley"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Advanced Intelligent Systems","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.5899999737739563,"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3"}],"awards":[{"id":"https://openalex.org/G2800869822","display_name":null,"funder_award_id":"42307370","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G6583634268","display_name":null,"funder_award_id":"SL2022A04J00752","funder_id":"https://openalex.org/F4320330743","funder_display_name":"Guangzhou Municipal Science and Technology Bureau"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320321557","display_name":"Chulalongkorn University","ror":"https://ror.org/028wp3y58"},{"id":"https://openalex.org/F4320330743","display_name":"Guangzhou Municipal Science and Technology Bureau","ror":null}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4410275031.pdf","grobid_xml":"https://content.openalex.org/works/W4410275031.grobid-xml"},"referenced_works_count":37,"referenced_works":["https://openalex.org/W1971192989","https://openalex.org/W1999895438","https://openalex.org/W2041073071","https://openalex.org/W2085752173","https://openalex.org/W2097698606","https://openalex.org/W2097771645","https://openalex.org/W2103017472","https://openalex.org/W2107552147","https://openalex.org/W2116034137","https://openalex.org/W2159482845","https://openalex.org/W2159583324","https://openalex.org/W2765726697","https://openalex.org/W2766208765","https://openalex.org/W2767891136","https://openalex.org/W2786189816","https://openalex.org/W2900569176","https://openalex.org/W2949311246","https://openalex.org/W2950753203","https://openalex.org/W2982016890","https://openalex.org/W3007246056","https://openalex.org/W3093194543","https://openalex.org/W3096748451","https://openalex.org/W3168771278","https://openalex.org/W3173702699","https://openalex.org/W4205454903","https://openalex.org/W4220972326","https://openalex.org/W4224280494","https://openalex.org/W4241006348","https://openalex.org/W4288905828","https://openalex.org/W4294216483","https://openalex.org/W4313215315","https://openalex.org/W4318983406","https://openalex.org/W4387866135","https://openalex.org/W4388539880","https://openalex.org/W4390584464","https://openalex.org/W4393184735","https://openalex.org/W4397031454"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2899084033","https://openalex.org/W2748952813","https://openalex.org/W3013205837","https://openalex.org/W4377239781","https://openalex.org/W4401275090","https://openalex.org/W4251589718","https://openalex.org/W2141479079","https://openalex.org/W71971794","https://openalex.org/W4238303560"],"abstract_inverted_index":{"Air":[0],"pollution,":[1],"particularly":[2],"fine":[3],"particulate":[4],"matter":[5],"(PM2.5),":[6],"is":[7],"a":[8,35,133],"major":[9],"global":[10],"health":[11,30],"threat,":[12],"linked":[13],"to":[14,86,110],"respiratory,":[15],"cardiovascular,":[16],"and":[17,28,46,57,64,72,92,113,124,145,157],"neurodegenerative":[18],"diseases.":[19,93],"To":[20],"investigate":[21],"the":[22,125,150,158,166],"toxicological":[23],"mechanisms":[24],"of":[25,127,152],"air":[26,107,143],"pollutants":[27,108],"their":[29],"effects,":[31],"we":[32],"developed":[33],"R\u2010APEX,":[34],"knowledge":[36,81],"graph":[37,82],"(KG)":[38],"platform":[39,159],"integrating":[40],"data":[41,156],"from":[42],"24":[43],"biomedical":[44],"databases":[45],"over":[47],"800":[48],"peer\u2010reviewed":[49],"publications.":[50],"The":[51],"complete":[52],"KG":[53],"contains":[54],"91,661":[55],"nodes":[56],"10,550,809":[58],"edges,":[59],"encompassing":[60],"11":[61],"entity":[62],"categories":[63],"75":[65],"relation":[66],"types.":[67],"R\u2010APEX":[68,118],"maps":[69],"both":[70],"curated":[71],"predicted":[73],"associations,":[74],"presented":[75],"via":[76],"interactive":[77],"visualization.":[78],"It":[79,130],"leverages":[80],"embedding":[83],"(KEG)":[84],"techniques":[85],"predict":[87],"relationships":[88],"between":[89,142],"pollutants,":[90],"genes,":[91],"These":[94],"predictive":[95,153],"capabilities":[96],"support":[97],"customized":[98],"analyes":[99],"for":[100,136],"research":[101,128],"needs,":[102],"facilitating":[103],"insight":[104],"into":[105],"how":[106],"contribute":[109],"human":[111],"diseases,":[112],"aiding":[114],"treatment":[115],"discovery.":[116],"Futhermore,":[117],"enables":[119],"multidimensional":[120],"analysis":[121],"hypothesis":[122],"generation,":[123],"development":[126],"plans.":[129],"servers":[131],"as":[132],"valuable":[134],"resource":[135],"academic":[137],"researchers":[138],"exploring":[139],"complex":[140],"links":[141],"pollution":[144],"biological":[146],"systems,":[147],"which":[148],"supporting":[149],"validation":[151],"models.":[154],"All":[155],"are":[160],"freely":[161],"available":[162],"at":[163,172],"https://rapex.prophetdb.org,":[164],"with":[165],"source":[167],"code":[168],"hosted":[169],"on":[170],"GitHub":[171],"https://github.com/open\u2010prophetdb/biomedgps\u2010data.":[173]},"counts_by_year":[],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}
