{"id":"https://openalex.org/W4296394052","doi":"https://doi.org/10.1093/bib/bbac399","title":"TPD: a web tool for tipping-point detection based on dynamic network biomarker","display_name":"TPD: a web tool for tipping-point detection based on dynamic network biomarker","publication_year":2022,"publication_date":"2022-09-01","ids":{"openalex":"https://openalex.org/W4296394052","doi":"https://doi.org/10.1093/bib/bbac399","pmid":"https://pubmed.ncbi.nlm.nih.gov/36088546"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbac399","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbac399","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/A5100326679","display_name":"Pei Chen","orcid":"https://orcid.org/0000-0002-2017-576X"},"institutions":[{"id":"https://openalex.org/I90610280","display_name":"South China University of Technology","ror":"https://ror.org/0530pts50","country_code":"CN","type":"education","lineage":["https://openalex.org/I90610280"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Pei Chen","raw_affiliation_strings":["School of Mathematics, South China University of Technology , Guangzhou 510640, China"],"affiliations":[{"raw_affiliation_string":"School of Mathematics, South China University of Technology , Guangzhou 510640, China","institution_ids":["https://openalex.org/I90610280"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5045431261","display_name":"Jiayuan Zhong","orcid":"https://orcid.org/0000-0003-0508-1383"},"institutions":[{"id":"https://openalex.org/I14894300","display_name":"Foshan University","ror":"https://ror.org/02xvvvp28","country_code":"CN","type":"education","lineage":["https://openalex.org/I14894300"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jiayuan Zhong","raw_affiliation_strings":["School of Mathematics and Big Data, Foshan University , Foshan 528000, China"],"affiliations":[{"raw_affiliation_string":"School of Mathematics and Big Data, Foshan University , Foshan 528000, China","institution_ids":["https://openalex.org/I14894300"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100435645","display_name":"Kun Yang","orcid":"https://orcid.org/0009-0002-6845-6381"},"institutions":[{"id":"https://openalex.org/I90610280","display_name":"South China University of Technology","ror":"https://ror.org/0530pts50","country_code":"CN","type":"education","lineage":["https://openalex.org/I90610280"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Kun Yang","raw_affiliation_strings":["School of Computer Science and Engineering, South China University of Technology , Guangzhou 510640, China"],"affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, South China University of Technology , Guangzhou 510640, China","institution_ids":["https://openalex.org/I90610280"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102782732","display_name":"Xuhang Zhang","orcid":"https://orcid.org/0000-0002-4659-7979"},"institutions":[{"id":"https://openalex.org/I90610280","display_name":"South China University of Technology","ror":"https://ror.org/0530pts50","country_code":"CN","type":"education","lineage":["https://openalex.org/I90610280"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xuhang Zhang","raw_affiliation_strings":["School of Computer Science and Engineering, South China University of Technology , Guangzhou 510640, China"],"affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, South China University of Technology , Guangzhou 510640, China","institution_ids":["https://openalex.org/I90610280"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5114162031","display_name":"Yingqi Chen","orcid":"https://orcid.org/0009-0004-8897-0104"},"institutions":[{"id":"https://openalex.org/I90610280","display_name":"South China University of Technology","ror":"https://ror.org/0530pts50","country_code":"CN","type":"education","lineage":["https://openalex.org/I90610280"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yingqi Chen","raw_affiliation_strings":["School of Computer Science and Engineering, South China University of Technology , Guangzhou 510640, China"],"affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, South China University of Technology , Guangzhou 510640, China","institution_ids":["https://openalex.org/I90610280"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100448485","display_name":"Rui Liu","orcid":"https://orcid.org/0000-0002-4547-8695"},"institutions":[{"id":"https://openalex.org/I90610280","display_name":"South China University of Technology","ror":"https://ror.org/0530pts50","country_code":"CN","type":"education","lineage":["https://openalex.org/I90610280"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Rui Liu","raw_affiliation_strings":["School of Mathematics, South China University of Technology , Guangzhou 510640, China"],"affiliations":[{"raw_affiliation_string":"School of Mathematics, South China University of Technology , Guangzhou 510640, China","institution_ids":["https://openalex.org/I90610280"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5100448485"],"corresponding_institution_ids":["https://openalex.org/I90610280"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":1.1122,"has_fulltext":false,"cited_by_count":10,"citation_normalized_percentile":{"value":0.75953706,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"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/T13377","display_name":"Ecosystem dynamics and resilience","score":0.9955999851226807,"subfield":{"id":"https://openalex.org/subfields/2306","display_name":"Global and Planetary Change"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T13377","display_name":"Ecosystem dynamics and resilience","score":0.9955999851226807,"subfield":{"id":"https://openalex.org/subfields/2306","display_name":"Global and Planetary Change"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9887999892234802,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9764999747276306,"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/tipping-point","display_name":"Tipping point (physics)","score":0.9019966125488281},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6141454577445984},{"id":"https://openalex.org/keywords/biomarker","display_name":"Biomarker","score":0.5860477089881897},{"id":"https://openalex.org/keywords/biological-network","display_name":"Biological network","score":0.5430083274841309},{"id":"https://openalex.org/keywords/key","display_name":"Key (lock)","score":0.44339823722839355},{"id":"https://openalex.org/keywords/point","display_name":"Point (geometry)","score":0.4203195571899414},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3769489526748657},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3058497905731201},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.1906985640525818},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.1480238139629364},{"id":"https://openalex.org/keywords/computer-security","display_name":"Computer security","score":0.11531805992126465},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.10811945796012878}],"concepts":[{"id":"https://openalex.org/C114725131","wikidata":"https://www.wikidata.org/wiki/Q190837","display_name":"Tipping point (physics)","level":2,"score":0.9019966125488281},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6141454577445984},{"id":"https://openalex.org/C2781197716","wikidata":"https://www.wikidata.org/wiki/Q864574","display_name":"Biomarker","level":2,"score":0.5860477089881897},{"id":"https://openalex.org/C28225019","wikidata":"https://www.wikidata.org/wiki/Q4915005","display_name":"Biological network","level":2,"score":0.5430083274841309},{"id":"https://openalex.org/C26517878","wikidata":"https://www.wikidata.org/wiki/Q228039","display_name":"Key (lock)","level":2,"score":0.44339823722839355},{"id":"https://openalex.org/C28719098","wikidata":"https://www.wikidata.org/wiki/Q44946","display_name":"Point (geometry)","level":2,"score":0.4203195571899414},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3769489526748657},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3058497905731201},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.1906985640525818},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.1480238139629364},{"id":"https://openalex.org/C38652104","wikidata":"https://www.wikidata.org/wiki/Q3510521","display_name":"Computer security","level":1,"score":0.11531805992126465},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.10811945796012878},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C119599485","wikidata":"https://www.wikidata.org/wiki/Q43035","display_name":"Electrical engineering","level":1,"score":0.0},{"id":"https://openalex.org/C2524010","wikidata":"https://www.wikidata.org/wiki/Q8087","display_name":"Geometry","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D015415","descriptor_name":"Biomarkers","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D015415","descriptor_name":"Biomarkers","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D015415","descriptor_name":"Biomarkers","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1093/bib/bbac399","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbac399","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:36088546","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/36088546","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":[{"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3","score":0.47999998927116394}],"awards":[{"id":"https://openalex.org/G1574233503","display_name":null,"funder_award_id":"2021A1515012317","funder_id":"https://openalex.org/F4320337111","funder_display_name":"Basic and Applied Basic Research Foundation of Guangdong Province"},{"id":"https://openalex.org/G3754337363","display_name":null,"funder_award_id":"62172164","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"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/G7159030997","display_name":null,"funder_award_id":"2019B151502062","funder_id":"https://openalex.org/F4320337111","funder_display_name":"Basic and Applied Basic Research Foundation of Guangdong Province"},{"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/F4320337111","display_name":"Basic and Applied Basic Research Foundation of Guangdong Province","ror":null}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":37,"referenced_works":["https://openalex.org/W1863537136","https://openalex.org/W1892363833","https://openalex.org/W2025498302","https://openalex.org/W2035471593","https://openalex.org/W2050034556","https://openalex.org/W2096173332","https://openalex.org/W2107350938","https://openalex.org/W2111132036","https://openalex.org/W2116199452","https://openalex.org/W2511896561","https://openalex.org/W2570396690","https://openalex.org/W2570629027","https://openalex.org/W2620676965","https://openalex.org/W2765174715","https://openalex.org/W2800948866","https://openalex.org/W2896829849","https://openalex.org/W2907471989","https://openalex.org/W2941644628","https://openalex.org/W2980281204","https://openalex.org/W2999336918","https://openalex.org/W3027224324","https://openalex.org/W3086494447","https://openalex.org/W3157468953","https://openalex.org/W3194482250","https://openalex.org/W3214258181","https://openalex.org/W4200461636","https://openalex.org/W4211248483","https://openalex.org/W4225905086","https://openalex.org/W4246023981","https://openalex.org/W4249273120","https://openalex.org/W4281663889","https://openalex.org/W6750932514","https://openalex.org/W6755952022","https://openalex.org/W6783174582","https://openalex.org/W6799811837","https://openalex.org/W6805054467","https://openalex.org/W6827839156"],"related_works":["https://openalex.org/W1582112035","https://openalex.org/W3028552157","https://openalex.org/W3144026435","https://openalex.org/W2735776092","https://openalex.org/W3019368397","https://openalex.org/W4231347132","https://openalex.org/W4235084910","https://openalex.org/W2970689960","https://openalex.org/W4387101716","https://openalex.org/W4386422748"],"abstract_inverted_index":{"Tipping":[0],"points":[1],"or":[2,37,69,78],"critical":[3,149],"transitions":[4],"widely":[5],"exist":[6],"during":[7,57],"the":[8,21,25,42,51,54,58,73,83,103,109,129,138,142,148,152],"progression":[9],"of":[10,16,53,61,87,95,169,175],"many":[11],"biological":[12,62,136],"processes.":[13],"It":[14],"is":[15,194],"great":[17],"importance":[18],"to":[19,34,162],"detect":[20],"tipping":[22,43,55,105,121],"point":[23,44,56,122],"with":[24,123],"measured":[26],"omics":[27,111],"data,":[28],"which":[29],"may":[30,146,160],"be":[31],"a":[32,47,93,119,124],"key":[33,131],"achieving":[35],"predictive":[36],"preventive":[38],"medicine.":[39],"We":[40],"present":[41],"detector":[45],"(TPD),":[46],"web":[48],"tool":[49],"for":[50,98],"detection":[52],"dynamic":[59,88,139],"process":[60],"systems,":[63],"and":[64,92,113,133,151,190],"further":[65],"its":[66],"leading":[67],"molecules":[68],"network,":[70],"based":[71,155],"on":[72,156],"input":[74,110],"high-dimensional":[75],"time":[76],"series":[77,94],"stage":[79],"course":[80],"data.":[81],"With":[82],"solid":[84],"theoretical":[85],"background":[86],"network":[89,144],"biomarker":[90],"(DNB)":[91],"computational":[96],"methods":[97],"DNB":[99,157,176],"detection,":[100],"TPD":[101,178,193],"detects":[102],"potential":[104],"point/critical":[106],"state":[107],"from":[108],"data":[112],"outputs":[114],"multifarious":[115],"visualized":[116],"results,":[117],"including":[118],"suggested":[120],"statistically":[125],"significant":[126],"P":[127],"value,":[128],"identified":[130],"genes":[132,165],"their":[134],"functional":[135],"information,":[137],"change":[140],"in":[141,167,173],"DNB/leading":[143],"that":[145,159],"drive":[147],"transition":[150],"survival":[153],"analysis":[154],"scores":[158],"help":[161],"identify":[163],"'dark'":[164],"(nondifferential":[166],"terms":[168,174],"expression":[170],"but":[171],"differential":[172],"scores).":[177],"fits":[179],"all":[180],"current":[181],"browsers,":[182],"such":[183],"as":[184],"Chrome,":[185],"Firefox,":[186],"Edge,":[187],"Opera,":[188],"Safari":[189],"Internet":[191],"Explorer.":[192],"freely":[195],"accessible":[196],"at":[197],"http://www.rpcomputationalbiology.cn/TPD.":[198]},"counts_by_year":[{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
