{"id":"https://openalex.org/W4390992065","doi":"https://doi.org/10.1109/bibm58861.2023.10385931","title":"Noninvasive diagnosis of hepatocellular carcinoma by integrating the genetic, epigenetic and fragmentation features of cell-free DNAs","display_name":"Noninvasive diagnosis of hepatocellular carcinoma by integrating the genetic, epigenetic and fragmentation features of cell-free DNAs","publication_year":2023,"publication_date":"2023-12-05","ids":{"openalex":"https://openalex.org/W4390992065","doi":"https://doi.org/10.1109/bibm58861.2023.10385931"},"language":"en","primary_location":{"id":"doi:10.1109/bibm58861.2023.10385931","is_oa":false,"landing_page_url":"http://dx.doi.org/10.1109/bibm58861.2023.10385931","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2023 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"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/A5103182832","display_name":"Xiaoqing Peng","orcid":"https://orcid.org/0000-0002-4099-5183"},"institutions":[{"id":"https://openalex.org/I139660479","display_name":"Central South University","ror":"https://ror.org/00f1zfq44","country_code":"CN","type":"education","lineage":["https://openalex.org/I139660479"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Xiaoqing Peng","raw_affiliation_strings":["Central South University,Center for Medical Genetics & Hunan Key Laboratory of Medical Genetics School of Life Sciences,Changsha,China"],"affiliations":[{"raw_affiliation_string":"Central South University,Center for Medical Genetics & Hunan Key Laboratory of Medical Genetics School of Life Sciences,Changsha,China","institution_ids":["https://openalex.org/I139660479"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103105260","display_name":"Junjie You","orcid":"https://orcid.org/0009-0007-0822-485X"},"institutions":[{"id":"https://openalex.org/I139660479","display_name":"Central South University","ror":"https://ror.org/00f1zfq44","country_code":"CN","type":"education","lineage":["https://openalex.org/I139660479"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Junjie You","raw_affiliation_strings":["Central South University,Center for Medical Genetics & Hunan Key Laboratory of Medical Genetics School of Life Sciences,Changsha,China"],"affiliations":[{"raw_affiliation_string":"Central South University,Center for Medical Genetics & Hunan Key Laboratory of Medical Genetics School of Life Sciences,Changsha,China","institution_ids":["https://openalex.org/I139660479"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5065927556","display_name":"Wanxin Cui","orcid":null},"institutions":[{"id":"https://openalex.org/I139660479","display_name":"Central South University","ror":"https://ror.org/00f1zfq44","country_code":"CN","type":"education","lineage":["https://openalex.org/I139660479"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Wanxin Cui","raw_affiliation_strings":["Central South University,Hunan Key Laboratory of Bioinformatics School of Computer Science and Engineering,Changsha,China","Hunan Key Laboratory of Bioinformatics School of Computer Science and Engineering, Central South University, Changsha, China"],"affiliations":[{"raw_affiliation_string":"Central South University,Hunan Key Laboratory of Bioinformatics School of Computer Science and Engineering,Changsha,China","institution_ids":["https://openalex.org/I139660479"]},{"raw_affiliation_string":"Hunan Key Laboratory of Bioinformatics School of Computer Science and Engineering, Central South University, Changsha, China","institution_ids":["https://openalex.org/I139660479"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5112931101","display_name":"Mengxi Zou","orcid":null},"institutions":[{"id":"https://openalex.org/I45129253","display_name":"University College London","ror":"https://ror.org/02jx3x895","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947","https://openalex.org/I45129253"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Mengxi Zou","raw_affiliation_strings":["University College London,Division of Biosciences,London,UK","Division of Biosciences, University College London, London, UK"],"affiliations":[{"raw_affiliation_string":"University College London,Division of Biosciences,London,UK","institution_ids":["https://openalex.org/I45129253"]},{"raw_affiliation_string":"Division of Biosciences, University College London, London, UK","institution_ids":["https://openalex.org/I45129253"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5103182832"],"corresponding_institution_ids":["https://openalex.org/I139660479"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.53818777,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"1380","last_page":"1385"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11287","display_name":"Cancer Genomics and Diagnostics","score":0.9998999834060669,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/T11287","display_name":"Cancer Genomics and Diagnostics","score":0.9998999834060669,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/T10231","display_name":"Pancreatic and Hepatic Oncology Research","score":0.994700014591217,"subfield":{"id":"https://openalex.org/subfields/2730","display_name":"Oncology"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T10269","display_name":"Epigenetics and DNA Methylation","score":0.9934999942779541,"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/hepatocellular-carcinoma","display_name":"Hepatocellular carcinoma","score":0.5743315815925598},{"id":"https://openalex.org/keywords/epigenetics","display_name":"Epigenetics","score":0.5169453024864197},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5067897439002991},{"id":"https://openalex.org/keywords/dna-methylation","display_name":"DNA methylation","score":0.4858805537223816},{"id":"https://openalex.org/keywords/bisulfite-sequencing","display_name":"Bisulfite sequencing","score":0.47002625465393066},{"id":"https://openalex.org/keywords/bisulfite","display_name":"Bisulfite","score":0.4529437720775604},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.3881208002567291},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.33648478984832764},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3231548070907593},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.28030461072921753},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.15510070323944092},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.09510016441345215}],"concepts":[{"id":"https://openalex.org/C2778019345","wikidata":"https://www.wikidata.org/wiki/Q1148337","display_name":"Hepatocellular carcinoma","level":2,"score":0.5743315815925598},{"id":"https://openalex.org/C41091548","wikidata":"https://www.wikidata.org/wiki/Q26939","display_name":"Epigenetics","level":3,"score":0.5169453024864197},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5067897439002991},{"id":"https://openalex.org/C190727270","wikidata":"https://www.wikidata.org/wiki/Q874745","display_name":"DNA methylation","level":4,"score":0.4858805537223816},{"id":"https://openalex.org/C189235521","wikidata":"https://www.wikidata.org/wiki/Q4087270","display_name":"Bisulfite sequencing","level":5,"score":0.47002625465393066},{"id":"https://openalex.org/C2775959680","wikidata":"https://www.wikidata.org/wiki/Q2718222","display_name":"Bisulfite","level":5,"score":0.4529437720775604},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3881208002567291},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.33648478984832764},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3231548070907593},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.28030461072921753},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.15510070323944092},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.09510016441345215}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/bibm58861.2023.10385931","is_oa":false,"landing_page_url":"http://dx.doi.org/10.1109/bibm58861.2023.10385931","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2023 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/10","display_name":"Reduced inequalities","score":0.6800000071525574}],"awards":[],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320321514","display_name":"Central South University","ror":"https://ror.org/00f1zfq44"},{"id":"https://openalex.org/F4320322843","display_name":"Natural Science Foundation of\u00a0Hunan Province","ror":null}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":31,"referenced_works":["https://openalex.org/W2089470652","https://openalex.org/W2108234281","https://openalex.org/W2131271579","https://openalex.org/W2131374955","https://openalex.org/W2169353806","https://openalex.org/W2239118478","https://openalex.org/W2388497630","https://openalex.org/W2745417329","https://openalex.org/W2765435739","https://openalex.org/W2800002600","https://openalex.org/W2889386969","https://openalex.org/W2908514932","https://openalex.org/W2917613203","https://openalex.org/W2947989913","https://openalex.org/W3009023731","https://openalex.org/W3013924915","https://openalex.org/W3044049599","https://openalex.org/W3129742612","https://openalex.org/W3141884635","https://openalex.org/W3165287952","https://openalex.org/W3194069390","https://openalex.org/W3209066998","https://openalex.org/W3212967789","https://openalex.org/W4200479098","https://openalex.org/W4229007096","https://openalex.org/W4282946732","https://openalex.org/W4292794463","https://openalex.org/W4308517585","https://openalex.org/W4313544615","https://openalex.org/W4319063059","https://openalex.org/W4385691272"],"related_works":["https://openalex.org/W2805216920","https://openalex.org/W2619376220","https://openalex.org/W2214376880","https://openalex.org/W2064302386","https://openalex.org/W3212149434","https://openalex.org/W2073893804","https://openalex.org/W2134949149","https://openalex.org/W2291484187","https://openalex.org/W2035236309","https://openalex.org/W2895945844"],"abstract_inverted_index":{"Cell-free":[0],"DNAs":[1],"(cfDNAs)":[2],"released":[3],"from":[4,52,119],"the":[5,53,116,127,133,136,155,198,202],"apoptosis":[6],"and":[7,83,150,192,214],"necrosis":[8],"cells":[9],"provide":[10],"abundant":[11],"information":[12],"for":[13,112,218],"screening":[14,219],"cancers.":[15,34,220],"Recent":[16],"studies":[17],"have":[18],"revealed":[19],"different":[20],"types":[21,61,176,209],"of":[22,33,49,56,62,77,86,95,135,161,177,182,186,190,195,210,212],"features":[23,50,64,211],"in":[24],"cfDNAs":[25,213],"which":[26,102],"can":[27,205],"be":[28],"applied":[29,142],"to":[30,44,108,125,143],"auxiliary":[31],"diagnosis":[32],"In":[35],"this":[36],"work,":[37],"we":[38],"proposed":[39],"a":[40,97,180,184,188],"staked":[41,137,203],"ensemble":[42,138],"model":[43,99,204],"effectively":[45,206],"integrate":[46,207],"three":[47],"classes":[48],"extracted":[51],"bisulfite":[54,158],"sequencing":[55,159],"cfDNA":[57],"samples,":[58],"including":[59],"four":[60,169],"fragmentation":[63],"(fragment":[65],"size":[66,69],"coverage,":[67],"fragment":[68,90],"distribution,":[70],"end":[71],"motif,":[72],"breakpoint":[73],"motif),":[74],"one":[75,84],"type":[76,85,94],"genetic":[78],"feature":[79,88],"(Copy":[80],"Number":[81],"variation),":[82],"epigenetic":[87],"(methylation":[89],"level).":[91],"For":[92],"each":[93],"features,":[96,178],"base":[98,121],"is":[100],"constructed":[101],"ensembles":[103],"six":[104,120,208],"machine":[105],"learning":[106],"algorithms":[107],"predict":[109],"cancer":[110,117],"scores":[111,118],"every":[113],"sample.":[114],"Then,":[115],"models":[122],"are":[123],"ensembled":[124],"generate":[126],"final":[128],"stacked":[129],"model.":[130],"To":[131],"demonstrate":[132],"effectiveness":[134],"model,":[139],"it":[140,167],"was":[141],"discriminate":[144],"samples":[145],"with":[146,172],"hepatocellular":[147],"carcinoma":[148],"(HCC)":[149],"health":[151],"controls":[152],"based":[153],"on":[154,197],"whole":[156],"genome":[157],"data":[160],"cfDNAs.":[162],"The":[163],"results":[164],"show":[165],"that":[166],"outperforms":[168],"popular":[170],"methods":[171],"single":[173],"or":[174],"multi":[175],"achieving":[179],"sensitivity":[181],"93.33%,":[183],"specificity":[185],"93.40%,":[187],"accuracy":[189],"95.67%":[191],"an":[193],"AUC":[194],"0.9815":[196],"validation":[199],"dataset.":[200],"Conclusively,":[201],"has":[215],"great":[216],"potential":[217]},"counts_by_year":[],"updated_date":"2025-12-19T19:40:27.379048","created_date":"2025-10-10T00:00:00"}