{"id":"https://openalex.org/W4403844786","doi":"https://doi.org/10.1186/s40537-024-01024-2","title":"HepScope: CNN-based single-cell discrimination of malignant hepatocytes","display_name":"HepScope: CNN-based single-cell discrimination of malignant hepatocytes","publication_year":2024,"publication_date":"2024-10-27","ids":{"openalex":"https://openalex.org/W4403844786","doi":"https://doi.org/10.1186/s40537-024-01024-2"},"language":"en","primary_location":{"id":"doi:10.1186/s40537-024-01024-2","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s40537-024-01024-2","pdf_url":"https://journalofbigdata.springeropen.com/counter/pdf/10.1186/s40537-024-01024-2","source":{"id":"https://openalex.org/S2737955091","display_name":"Journal Of Big Data","issn_l":"2196-1115","issn":["2196-1115"],"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-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Big Data","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journalofbigdata.springeropen.com/counter/pdf/10.1186/s40537-024-01024-2","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5049463558","display_name":"Yunjin Go","orcid":"https://orcid.org/0009-0000-2719-2987"},"institutions":[{"id":"https://openalex.org/I57664883","display_name":"Ajou University","ror":"https://ror.org/03tzb2h73","country_code":"KR","type":"education","lineage":["https://openalex.org/I57664883"]}],"countries":["KR"],"is_corresponding":true,"raw_author_name":"Yunjin Go","raw_affiliation_strings":["Department of Biochemistry & Molecular Biology, Ajou University School of Medicine, Suwon, 16499, Korea","Department of Biomedical Sciences, Graduate School of Ajou University, Suwon, 16499, Korea","Inflamm-Aging Translational Research Center, Ajou University Medical Center, Suwon, 16499, Korea"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biochemistry & Molecular Biology, Ajou University School of Medicine, Suwon, 16499, Korea","institution_ids":["https://openalex.org/I57664883"]},{"raw_affiliation_string":"Department of Biomedical Sciences, Graduate School of Ajou University, Suwon, 16499, Korea","institution_ids":["https://openalex.org/I57664883"]},{"raw_affiliation_string":"Inflamm-Aging Translational Research Center, Ajou University Medical Center, Suwon, 16499, Korea","institution_ids":["https://openalex.org/I57664883"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5017913185","display_name":"J Ng","orcid":"https://orcid.org/0009-0000-8568-754X"},"institutions":[{"id":"https://openalex.org/I57664883","display_name":"Ajou University","ror":"https://ror.org/03tzb2h73","country_code":"KR","type":"education","lineage":["https://openalex.org/I57664883"]}],"countries":["KR"],"is_corresponding":false,"raw_author_name":"Jestlin Tianthing Ng","raw_affiliation_strings":["Department of Biochemistry & Molecular Biology, Ajou University School of Medicine, Suwon, 16499, Korea","Department of Biomedical Sciences, Graduate School of Ajou University, Suwon, 16499, Korea","Inflamm-Aging Translational Research Center, Ajou University Medical Center, Suwon, 16499, Korea"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biochemistry & Molecular Biology, Ajou University School of Medicine, Suwon, 16499, Korea","institution_ids":["https://openalex.org/I57664883"]},{"raw_affiliation_string":"Department of Biomedical Sciences, Graduate School of Ajou University, Suwon, 16499, Korea","institution_ids":["https://openalex.org/I57664883"]},{"raw_affiliation_string":"Inflamm-Aging Translational Research Center, Ajou University Medical Center, Suwon, 16499, Korea","institution_ids":["https://openalex.org/I57664883"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5035273217","display_name":"Wan\u2010Teck Lim","orcid":"https://orcid.org/0000-0002-4655-0206"},"institutions":[{"id":"https://openalex.org/I4210137145","display_name":"National Cancer Centre Singapore","ror":"https://ror.org/03bqk3e80","country_code":"SG","type":"healthcare","lineage":["https://openalex.org/I4210137145"]}],"countries":["SG"],"is_corresponding":false,"raw_author_name":"Darren Wan-Teck Lim","raw_affiliation_strings":["Division of Medical Oncology, National Cancer Centre, Singapore, 16853, Singapore"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Division of Medical Oncology, National Cancer Centre, Singapore, 16853, Singapore","institution_ids":["https://openalex.org/I4210137145"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5031215301","display_name":"Su Bin Lim","orcid":"https://orcid.org/0000-0003-1752-7039"},"institutions":[{"id":"https://openalex.org/I57664883","display_name":"Ajou University","ror":"https://ror.org/03tzb2h73","country_code":"KR","type":"education","lineage":["https://openalex.org/I57664883"]}],"countries":["KR"],"is_corresponding":false,"raw_author_name":"Su Bin Lim","raw_affiliation_strings":["Department of Biochemistry & Molecular Biology, Ajou University School of Medicine, Suwon, 16499, Korea","Department of Biomedical Sciences, Graduate School of Ajou University, Suwon, 16499, Korea","Inflamm-Aging Translational Research Center, Ajou University Medical Center, Suwon, 16499, Korea"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biochemistry & Molecular Biology, Ajou University School of Medicine, Suwon, 16499, Korea","institution_ids":["https://openalex.org/I57664883"]},{"raw_affiliation_string":"Department of Biomedical Sciences, Graduate School of Ajou University, Suwon, 16499, Korea","institution_ids":["https://openalex.org/I57664883"]},{"raw_affiliation_string":"Inflamm-Aging Translational Research Center, Ajou University Medical Center, Suwon, 16499, Korea","institution_ids":["https://openalex.org/I57664883"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5049463558"],"corresponding_institution_ids":["https://openalex.org/I57664883"],"apc_list":{"value":1060,"currency":"GBP","value_usd":1300},"apc_paid":{"value":1060,"currency":"GBP","value_usd":1300},"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.16769219,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"11","issue":"1","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9991000294685364,"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/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9991000294685364,"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/T12859","display_name":"Cell Image Analysis Techniques","score":0.9962000250816345,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"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/T11287","display_name":"Cancer Genomics and Diagnostics","score":0.9828000068664551,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/computational-science-and-engineering","display_name":"Computational Science and Engineering","score":0.7725294828414917},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.77228844165802},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.34203004837036133},{"id":"https://openalex.org/keywords/computational-science","display_name":"Computational science","score":0.2694305181503296}],"concepts":[{"id":"https://openalex.org/C68597687","wikidata":"https://www.wikidata.org/wiki/Q362601","display_name":"Computational Science and Engineering","level":2,"score":0.7725294828414917},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.77228844165802},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.34203004837036133},{"id":"https://openalex.org/C459310","wikidata":"https://www.wikidata.org/wiki/Q117801","display_name":"Computational science","level":1,"score":0.2694305181503296}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1186/s40537-024-01024-2","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s40537-024-01024-2","pdf_url":"https://journalofbigdata.springeropen.com/counter/pdf/10.1186/s40537-024-01024-2","source":{"id":"https://openalex.org/S2737955091","display_name":"Journal Of Big Data","issn_l":"2196-1115","issn":["2196-1115"],"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-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Big Data","raw_type":"journal-article"},{"id":"pmh:oai:doaj.org/article:49d4a783d21542e4a48efc9d79727e60","is_oa":true,"landing_page_url":"https://doaj.org/article/49d4a783d21542e4a48efc9d79727e60","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":"Journal of Big Data, Vol 11, Iss 1, Pp 1-28 (2024)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1186/s40537-024-01024-2","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s40537-024-01024-2","pdf_url":"https://journalofbigdata.springeropen.com/counter/pdf/10.1186/s40537-024-01024-2","source":{"id":"https://openalex.org/S2737955091","display_name":"Journal Of Big Data","issn_l":"2196-1115","issn":["2196-1115"],"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-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Big Data","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Gender equality","score":0.4399999976158142,"id":"https://metadata.un.org/sdg/5"}],"awards":[{"id":"https://openalex.org/G5064041051","display_name":null,"funder_award_id":"CIRG MOH-000375","funder_id":"https://openalex.org/F4320320697","funder_display_name":"Ministry of Health -Singapore"},{"id":"https://openalex.org/G6593313712","display_name":null,"funder_award_id":"2020R1A6A1A03043539","funder_id":"https://openalex.org/F4320322120","funder_display_name":"National Research Foundation of Korea"}],"funders":[{"id":"https://openalex.org/F4320320697","display_name":"Ministry of Health -Singapore","ror":"https://ror.org/00mrhvv69"},{"id":"https://openalex.org/F4320322120","display_name":"National Research Foundation of Korea","ror":"https://ror.org/013aysd81"}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W4403844786.pdf"},"referenced_works_count":79,"referenced_works":["https://openalex.org/W266835872","https://openalex.org/W1969096316","https://openalex.org/W1985166341","https://openalex.org/W1986536399","https://openalex.org/W2011301426","https://openalex.org/W2019574453","https://openalex.org/W2025345760","https://openalex.org/W2057677324","https://openalex.org/W2061939373","https://openalex.org/W2118132731","https://openalex.org/W2123106337","https://openalex.org/W2123730033","https://openalex.org/W2126330431","https://openalex.org/W2130410032","https://openalex.org/W2131495509","https://openalex.org/W2148560592","https://openalex.org/W2159759316","https://openalex.org/W2243873100","https://openalex.org/W2297822018","https://openalex.org/W2462605598","https://openalex.org/W2532595713","https://openalex.org/W2746288782","https://openalex.org/W2762280203","https://openalex.org/W2765398339","https://openalex.org/W2772017385","https://openalex.org/W2793940419","https://openalex.org/W2804603137","https://openalex.org/W2896518632","https://openalex.org/W2962835968","https://openalex.org/W2963454111","https://openalex.org/W2978708928","https://openalex.org/W2984472267","https://openalex.org/W2985219249","https://openalex.org/W2992151131","https://openalex.org/W2999160028","https://openalex.org/W3035965352","https://openalex.org/W3040511351","https://openalex.org/W3042462196","https://openalex.org/W3042467660","https://openalex.org/W3042996766","https://openalex.org/W3045207601","https://openalex.org/W3099878876","https://openalex.org/W3100777112","https://openalex.org/W3112963314","https://openalex.org/W3118017075","https://openalex.org/W3122989566","https://openalex.org/W3128646645","https://openalex.org/W3135107870","https://openalex.org/W3149478864","https://openalex.org/W3164692211","https://openalex.org/W3169908766","https://openalex.org/W3175283754","https://openalex.org/W3186678898","https://openalex.org/W3189821569","https://openalex.org/W3193860126","https://openalex.org/W3198666770","https://openalex.org/W3207926717","https://openalex.org/W4210499162","https://openalex.org/W4212931413","https://openalex.org/W4225598893","https://openalex.org/W4225929868","https://openalex.org/W4226356561","https://openalex.org/W4229028678","https://openalex.org/W4254687493","https://openalex.org/W4281620292","https://openalex.org/W4290072634","https://openalex.org/W4294647545","https://openalex.org/W4300473403","https://openalex.org/W4307272168","https://openalex.org/W4307357496","https://openalex.org/W4308620781","https://openalex.org/W4308939290","https://openalex.org/W4317381231","https://openalex.org/W4361004561","https://openalex.org/W4375856186","https://openalex.org/W4380203269","https://openalex.org/W4382877140","https://openalex.org/W4393319343","https://openalex.org/W4401385150"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2899084033","https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W4391913857","https://openalex.org/W2358668433","https://openalex.org/W4396701345","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W4396696052"],"abstract_inverted_index":{"Hepatocellular":[0],"carcinoma":[1],"(HCC)":[2],"presents":[3],"a":[4,18,167,178,190],"major":[5],"health":[6],"issue":[7],"worldwide.":[8],"This":[9],"study":[10],"introduces":[11],"the":[12,37,105,148,152,162],"HepScope":[13,53,72,106,153,188],"gene":[14,54,67,73,94,107,125,154,192],"set,":[15,108],"developed":[16],"through":[17],"hybrid":[19],"approach":[20],"that":[21,161],"utilizes":[22],"single-cell":[23],"RNA":[24],"sequencing":[25],"(scRNA-seq),":[26],"spatial":[27],"transcriptomics":[28],"(stRNA-seq),":[29],"bulk":[30],"RNA-seq,":[31],"and":[32,115,132,136,173,197,210],"proteomics":[33],"data,":[34],"along":[35],"with":[36],"adaptation":[38],"of":[39,151,171],"Convolutional":[40],"Neural":[41],"Network":[42],"(CNN)":[43],"techniques.":[44],"Comprising":[45],"113":[46],"genes":[47,58],"significantly":[48],"upregulated":[49],"in":[50,79,200,205],"malignant":[51,81],"hepatocytes,":[52,84],"set":[55,62,74,155,193],"includes":[56],"77":[57],"unique":[59],"to":[60,64,120],"this":[61],"compared":[63,119],"other":[65,93,124],"HCC-related":[66],"sets.":[68],"Unlike":[69],"existing":[70],"solutions,":[71],"demonstrated":[75],"superior":[76,110],"discriminatory":[77],"power":[78],"distinguishing":[80],"from":[82],"non-malignant":[83],"as":[85,189],"validated":[86],"by":[87],"Seurat's":[88],"module":[89],"score,":[90],"outperforming":[91],"five":[92],"sets":[95],"across":[96,156],"multiple":[97],"datasets.":[98],"A":[99],"1D-CNN":[100],"model,":[101],"specifically":[102],"adapted":[103],"for":[104,181,194,208],"achieved":[109],"accuracy":[111],"(0.71),":[112],"AUROC":[113],"(0.82),":[114],"F1":[116],"score":[117,165],"(0.85)":[118],"models":[121,140],"trained":[122],"on":[123],"sets,":[126],"underscoring":[127],"its":[128,203],"enhanced":[129],"predictive":[130],"precision":[131,206],"robustness.":[133],"Rigorous":[134],"cross-validation":[135],"benchmarking":[137],"against":[138],"alternative":[139],"confirmed":[141],"HepScope\u2019s":[142],"consistent":[143],"performance.":[144],"Additionally,":[145],"we":[146],"evaluated":[147],"prognostic":[149,198],"capability":[150],"two":[157],"independent":[158,169],"cohorts,":[159],"demonstrating":[160],"HepScope-based":[163],"risk":[164],"is":[166],"strong":[168],"predictor":[170],"overall":[172],"disease-free":[174],"survival,":[175],"making":[176],"it":[177],"valuable":[179],"tool":[180],"patient":[182],"prognosis.":[183],"Collectively,":[184],"our":[185],"findings":[186],"position":[187],"promising":[191],"both":[195],"diagnostic":[196],"applications":[199],"HCC,":[201],"highlighting":[202],"potential":[204],"medicine":[207],"HCC":[209],"offering":[211],"insights":[212],"into":[213],"personalized":[214],"therapy":[215],"development.":[216]},"counts_by_year":[],"updated_date":"2026-05-06T08:25:59.206177","created_date":"2025-10-10T00:00:00"}
