{"id":"https://openalex.org/W4225905086","doi":"https://doi.org/10.1093/bib/bbac164","title":"Detecting the critical states during disease development based on temporal network flow entropy","display_name":"Detecting the critical states during disease development based on temporal network flow entropy","publication_year":2022,"publication_date":"2022-04-14","ids":{"openalex":"https://openalex.org/W4225905086","doi":"https://doi.org/10.1093/bib/bbac164","pmid":"https://pubmed.ncbi.nlm.nih.gov/35580862"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbac164","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbac164","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","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/A5102783344","display_name":"Rong Gao","orcid":"https://orcid.org/0000-0002-9525-098X"},"institutions":[{"id":"https://openalex.org/I167383011","display_name":"Henan University of Science and Technology","ror":"https://ror.org/05d80kz58","country_code":"CN","type":"education","lineage":["https://openalex.org/I167383011"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Rong Gao","raw_affiliation_strings":["School of Mathematics and Statistics, Henan University of Science and Technology , Luoyang 471023, China"],"affiliations":[{"raw_affiliation_string":"School of Mathematics and Statistics, Henan University of Science and Technology , Luoyang 471023, China","institution_ids":["https://openalex.org/I167383011"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5047810066","display_name":"Jinling Yan","orcid":"https://orcid.org/0000-0001-5141-5976"},"institutions":[{"id":"https://openalex.org/I167383011","display_name":"Henan University of Science and Technology","ror":"https://ror.org/05d80kz58","country_code":"CN","type":"education","lineage":["https://openalex.org/I167383011"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jinling Yan","raw_affiliation_strings":["School of Mathematics and Statistics, Henan University of Science and Technology , Luoyang 471023, China"],"affiliations":[{"raw_affiliation_string":"School of Mathematics and Statistics, Henan University of Science and Technology , Luoyang 471023, China","institution_ids":["https://openalex.org/I167383011"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5006759058","display_name":"Peiluan Li","orcid":"https://orcid.org/0000-0001-5545-6185"},"institutions":[{"id":"https://openalex.org/I167383011","display_name":"Henan University of Science and Technology","ror":"https://ror.org/05d80kz58","country_code":"CN","type":"education","lineage":["https://openalex.org/I167383011"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Peiluan Li","raw_affiliation_strings":["School of Mathematics and Statistics, Henan University of Science and Technology , Luoyang 471023, China"],"affiliations":[{"raw_affiliation_string":"School of Mathematics and Statistics, Henan University of Science and Technology , Luoyang 471023, China","institution_ids":["https://openalex.org/I167383011"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5012283696","display_name":"Luonan Chen","orcid":"https://orcid.org/0000-0002-3960-0068"},"institutions":[{"id":"https://openalex.org/I4210165038","display_name":"University of Chinese Academy of Sciences","ror":"https://ror.org/05qbk4x57","country_code":"CN","type":"education","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210165038"]},{"id":"https://openalex.org/I32820368","display_name":"Guangdong Polytechnic of Science and Technology","ror":"https://ror.org/01wq2p249","country_code":"CN","type":"education","lineage":["https://openalex.org/I32820368"]},{"id":"https://openalex.org/I4210121447","display_name":"Center for Excellence in Molecular Cell Science","ror":"https://ror.org/02rrdvm96","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210121447"]},{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"funder","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["CN","JP"],"is_corresponding":true,"raw_author_name":"Luonan Chen","raw_affiliation_strings":["Guangdong Institute of Intelligence Science and Technology , Hengqin, Zhuhai, Guangdong 519031, China","International Research Center for Neurointelligence, The University of Tokyo Institutes for Advanced Study, The University of Tokyo , Tokyo 113-0033, Japan","Key Laboratory of Cell Biology, Shanghai Institute of Biochemistry and Cell Biology, Center for Excellence in Molecular Cell Science, Chinese Academy of Sciences , Shanghai 200031, China","Key Laboratory of Systems Health Science of Zhejiang Province, Hangzhou Institute for Advanced Study, University of Chinese Academy of Sciences , Hangzhou 310024, China"],"affiliations":[{"raw_affiliation_string":"Guangdong Institute of Intelligence Science and Technology , Hengqin, Zhuhai, Guangdong 519031, China","institution_ids":["https://openalex.org/I32820368"]},{"raw_affiliation_string":"International Research Center for Neurointelligence, The University of Tokyo Institutes for Advanced Study, The University of Tokyo , Tokyo 113-0033, Japan","institution_ids":["https://openalex.org/I74801974"]},{"raw_affiliation_string":"Key Laboratory of Cell Biology, Shanghai Institute of Biochemistry and Cell Biology, Center for Excellence in Molecular Cell Science, Chinese Academy of Sciences , Shanghai 200031, China","institution_ids":["https://openalex.org/I4210121447","https://openalex.org/I19820366"]},{"raw_affiliation_string":"Key Laboratory of Systems Health Science of Zhejiang Province, Hangzhou Institute for Advanced Study, University of Chinese Academy of Sciences , Hangzhou 310024, China","institution_ids":["https://openalex.org/I4210165038"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5006759058","https://openalex.org/A5012283696"],"corresponding_institution_ids":["https://openalex.org/I167383011","https://openalex.org/I19820366","https://openalex.org/I32820368","https://openalex.org/I4210121447","https://openalex.org/I4210165038","https://openalex.org/I74801974"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":1.9729,"has_fulltext":false,"cited_by_count":23,"citation_normalized_percentile":{"value":0.86776557,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":97,"max":99},"biblio":{"volume":"23","issue":"5","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":0.9988999962806702,"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":0.9988999962806702,"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9966999888420105,"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/T10836","display_name":"Metabolomics and Mass Spectrometry Studies","score":0.9921000003814697,"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":0.6598700284957886},{"id":"https://openalex.org/keywords/warning-system","display_name":"Warning system","score":0.5795305371284485},{"id":"https://openalex.org/keywords/complex-network","display_name":"Complex network","score":0.5330015420913696},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.46768122911453247},{"id":"https://openalex.org/keywords/entropy","display_name":"Entropy (arrow of time)","score":0.4611056447029114},{"id":"https://openalex.org/keywords/disease","display_name":"Disease","score":0.41600173711776733},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.35657641291618347},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.16083669662475586},{"id":"https://openalex.org/keywords/pathology","display_name":"Pathology","score":0.09384679794311523}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6598700284957886},{"id":"https://openalex.org/C29825287","wikidata":"https://www.wikidata.org/wiki/Q1427940","display_name":"Warning system","level":2,"score":0.5795305371284485},{"id":"https://openalex.org/C34947359","wikidata":"https://www.wikidata.org/wiki/Q665189","display_name":"Complex network","level":2,"score":0.5330015420913696},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.46768122911453247},{"id":"https://openalex.org/C106301342","wikidata":"https://www.wikidata.org/wiki/Q4117933","display_name":"Entropy (arrow of time)","level":2,"score":0.4611056447029114},{"id":"https://openalex.org/C2779134260","wikidata":"https://www.wikidata.org/wiki/Q12136","display_name":"Disease","level":2,"score":0.41600173711776733},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.35657641291618347},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.16083669662475586},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.09384679794311523},{"id":"https://openalex.org/C76155785","wikidata":"https://www.wikidata.org/wiki/Q418","display_name":"Telecommunications","level":1,"score":0.0},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D004198","descriptor_name":"Disease Susceptibility","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004198","descriptor_name":"Disease Susceptibility","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004198","descriptor_name":"Disease Susceptibility","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},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D015415","descriptor_name":"Biomarkers","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015415","descriptor_name":"Biomarkers","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015415","descriptor_name":"Biomarkers","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018450","descriptor_name":"Disease Progression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018450","descriptor_name":"Disease Progression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018450","descriptor_name":"Disease Progression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019277","descriptor_name":"Entropy","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019277","descriptor_name":"Entropy","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019277","descriptor_name":"Entropy","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bib/bbac164","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbac164","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:35580862","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/35580862","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":"Briefings in bioinformatics","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.7900000214576721,"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being"}],"awards":[{"id":"https://openalex.org/G1007789424","display_name":null,"funder_award_id":"2017YFA0505500","funder_id":"https://openalex.org/F4320335777","funder_display_name":"National Key Research and Development Program of China"},{"id":"https://openalex.org/G1031434965","display_name":null,"funder_award_id":"31930022","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G4789610975","display_name":null,"funder_award_id":"XDB38040400","funder_id":"https://openalex.org/F4320321133","funder_display_name":"Chinese Academy of Sciences"},{"id":"https://openalex.org/G6708942360","display_name":null,"funder_award_id":"12131020","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G8081760823","display_name":null,"funder_award_id":"12026608","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320321133","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35"},{"id":"https://openalex.org/F4320335777","display_name":"National Key Research and Development Program of China","ror":null}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":47,"referenced_works":["https://openalex.org/W1892363833","https://openalex.org/W1996264210","https://openalex.org/W2005335309","https://openalex.org/W2012636132","https://openalex.org/W2026465646","https://openalex.org/W2035471593","https://openalex.org/W2048987737","https://openalex.org/W2108857546","https://openalex.org/W2119785831","https://openalex.org/W2139218166","https://openalex.org/W2155465020","https://openalex.org/W2164536651","https://openalex.org/W2170637394","https://openalex.org/W2313159354","https://openalex.org/W2400579868","https://openalex.org/W2502908839","https://openalex.org/W2754346778","https://openalex.org/W2765174715","https://openalex.org/W2884223799","https://openalex.org/W2907471989","https://openalex.org/W2926714285","https://openalex.org/W2950222828","https://openalex.org/W2963633790","https://openalex.org/W2980281204","https://openalex.org/W3003876950","https://openalex.org/W3004295003","https://openalex.org/W3007067689","https://openalex.org/W3041833835","https://openalex.org/W3088121437","https://openalex.org/W3107257895","https://openalex.org/W3119619588","https://openalex.org/W3120257849","https://openalex.org/W3135480207","https://openalex.org/W3136481848","https://openalex.org/W3160014686","https://openalex.org/W3160851352","https://openalex.org/W3161100926","https://openalex.org/W3166613829","https://openalex.org/W3168090524","https://openalex.org/W3181422811","https://openalex.org/W3200303296","https://openalex.org/W3213033544","https://openalex.org/W6656480880","https://openalex.org/W6749486397","https://openalex.org/W6773631070","https://openalex.org/W6780699171","https://openalex.org/W6796223879"],"related_works":["https://openalex.org/W2973880684","https://openalex.org/W2279816154","https://openalex.org/W2378400385","https://openalex.org/W2386569836","https://openalex.org/W2389148896","https://openalex.org/W4377093630","https://openalex.org/W2349954871","https://openalex.org/W2385644071","https://openalex.org/W2389760684","https://openalex.org/W2381877895"],"abstract_inverted_index":{"Complex":[0],"diseases":[1,23,66,107],"progression":[2],"can":[3,24],"be":[4,25],"generally":[5],"divided":[6],"into":[7],"three":[8],"states,":[9],"which":[10],"are":[11],"normal":[12],"state,":[13],"predisease/critical":[14],"state":[15,42],"and":[16,122,130,135,148,173,213],"disease":[17,50,210],"state.":[18],"The":[19,156],"sudden":[20],"deterioration":[21,145,211],"of":[22,44,64,87,105,111,196],"viewed":[26],"as":[27],"a":[28,31,56,80,119],"bifurcation":[29],"or":[30,40,94],"critical":[32,41,62,103,142,184],"transition.":[33],"Therefore,":[34],"hunting":[35],"for":[36,198,217],"the":[37,49,61,102,109,141,159,164,178,183,187,190,194],"tipping":[38],"point":[39],"is":[43,54,167,174],"great":[45],"importance":[46],"to":[47,59,100,118,177],"prevent":[48],"deterioration.":[51],"However,":[52],"it":[53],"still":[55],"challenging":[57],"task":[58],"detect":[60,101],"states":[63,104,143],"complex":[65,106],"with":[67,132],"high-dimensional":[68,138],"data,":[69],"especially":[70],"based":[71,83,219],"on":[72,84,108,158,181,189,202,220],"an":[73],"individual.":[74,113],"In":[75,205],"this":[76,116],"study,":[77],"we":[78,207],"develop":[79],"new":[81],"method":[82,117,166],"network":[85,90,97,151],"fluctuation":[86],"molecules,":[88],"temporal":[89,95],"flow":[91,98],"entropy":[92],"(TNFE)":[93],"differential":[96],"entropy,":[99],"basis":[110],"each":[112],"By":[114],"applying":[115],"simulated":[120,160],"dataset":[121,161],"six":[123],"real":[124,191],"diseases,":[125],"including":[126],"respiratory":[127],"viral":[128],"infections":[129],"tumors":[131],"four":[133],"time-course":[134],"two":[136],"stage-course":[137],"omics":[139],"datasets,":[140],"before":[144],"were":[146,153],"detected":[147],"their":[149],"dynamic":[150],"biomarkers":[152],"identified":[154,214],"successfully.":[155],"results":[157],"indicate":[162],"that":[163],"TNFE":[165,197],"robust":[168],"under":[169],"different":[170],"noise":[171],"strengths,":[172],"also":[175,208],"superior":[176],"existing":[179],"methods":[180],"detecting":[182],"states.":[185],"Moreover,":[186],"analysis":[188],"datasets":[192],"demonstrated":[193],"effectiveness":[195],"providing":[199],"early-warning":[200],"signals":[201],"various":[203],"diseases.":[204],"addition,":[206],"predicted":[209],"risk":[212],"drug":[215],"targets":[216],"cancers":[218],"stage-wise":[221],"data.":[222]},"counts_by_year":[{"year":2025,"cited_by_count":7},{"year":2024,"cited_by_count":4},{"year":2023,"cited_by_count":6},{"year":2022,"cited_by_count":6}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
