{"id":"https://openalex.org/W3162373443","doi":"https://doi.org/10.1109/jbhi.2021.3081380","title":"Effective Clustering for Single Cell Sequencing Cancer Data","display_name":"Effective Clustering for Single Cell Sequencing Cancer Data","publication_year":2021,"publication_date":"2021-05-18","ids":{"openalex":"https://openalex.org/W3162373443","doi":"https://doi.org/10.1109/jbhi.2021.3081380","mag":"3162373443","pmid":"https://pubmed.ncbi.nlm.nih.gov/34003758"},"language":"en","primary_location":{"id":"doi:10.1109/jbhi.2021.3081380","is_oa":false,"landing_page_url":"https://doi.org/10.1109/jbhi.2021.3081380","pdf_url":null,"source":{"id":"https://openalex.org/S2495854775","display_name":"IEEE Journal of Biomedical and Health Informatics","issn_l":"2168-2194","issn":["2168-2194","2168-2208"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Journal of Biomedical and Health Informatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","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/A5048411377","display_name":"Simone Ciccolella","orcid":"https://orcid.org/0000-0002-6469-4887"},"institutions":[{"id":"https://openalex.org/I66752286","display_name":"University of Milano-Bicocca","ror":"https://ror.org/01ynf4891","country_code":"IT","type":"education","lineage":["https://openalex.org/I66752286"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Simone Ciccolella","raw_affiliation_strings":["Department of Informatics, Systems and Communication, University of Milano-Bicocca, Milan, Italy","[Dept. of Informatics, Systems and Communication, University of Milano-Bicocca, Milan, Italy]"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Informatics, Systems and Communication, University of Milano-Bicocca, Milan, Italy","institution_ids":["https://openalex.org/I66752286"]},{"raw_affiliation_string":"[Dept. of Informatics, Systems and Communication, University of Milano-Bicocca, Milan, Italy]","institution_ids":["https://openalex.org/I66752286"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5026228482","display_name":"Murray Patterson","orcid":"https://orcid.org/0000-0002-4329-0234"},"institutions":[{"id":"https://openalex.org/I181565077","display_name":"Georgia State University","ror":"https://ror.org/03qt6ba18","country_code":"US","type":"education","lineage":["https://openalex.org/I181565077"]},{"id":"https://openalex.org/I66752286","display_name":"University of Milano-Bicocca","ror":"https://ror.org/01ynf4891","country_code":"IT","type":"education","lineage":["https://openalex.org/I66752286"]}],"countries":["IT","US"],"is_corresponding":false,"raw_author_name":"Murray Patterson","raw_affiliation_strings":["Department of Computer Science, Georgia State University, Atlanta, GA, USA","University of Milano-Bicocca, Milan, Italy","Department of Computer Science, Georgia State University, Atlanta, GA, USA; University of Milano-Bicocca, Milan, Italy"],"raw_orcid":"https://orcid.org/0000-0002-4329-0234","affiliations":[{"raw_affiliation_string":"Department of Computer Science, Georgia State University, Atlanta, GA, USA","institution_ids":["https://openalex.org/I181565077"]},{"raw_affiliation_string":"University of Milano-Bicocca, Milan, Italy","institution_ids":["https://openalex.org/I66752286"]},{"raw_affiliation_string":"Department of Computer Science, Georgia State University, Atlanta, GA, USA; University of Milano-Bicocca, Milan, Italy","institution_ids":["https://openalex.org/I181565077","https://openalex.org/I66752286"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5038691764","display_name":"Paola Bonizzoni","orcid":"https://orcid.org/0000-0001-7289-4988"},"institutions":[{"id":"https://openalex.org/I66752286","display_name":"University of Milano-Bicocca","ror":"https://ror.org/01ynf4891","country_code":"IT","type":"education","lineage":["https://openalex.org/I66752286"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Paola Bonizzoni","raw_affiliation_strings":["Department of Informatics, Systems and Communication, University of Milano-Bicocca, Milan, Italy","[Dept. of Informatics, Systems and Communication, University of Milano-Bicocca, Milan, Italy]"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Informatics, Systems and Communication, University of Milano-Bicocca, Milan, Italy","institution_ids":["https://openalex.org/I66752286"]},{"raw_affiliation_string":"[Dept. of Informatics, Systems and Communication, University of Milano-Bicocca, Milan, Italy]","institution_ids":["https://openalex.org/I66752286"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5059679442","display_name":"Gianluca Della Vedova","orcid":"https://orcid.org/0000-0001-5584-3089"},"institutions":[{"id":"https://openalex.org/I66752286","display_name":"University of Milano-Bicocca","ror":"https://ror.org/01ynf4891","country_code":"IT","type":"education","lineage":["https://openalex.org/I66752286"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Gianluca Della Vedova","raw_affiliation_strings":["Department of Informatics, Systems and Communication, University of Milano-Bicocca, Milan, Italy","[Dept. of Informatics, Systems and Communication, University of Milano-Bicocca, Milan, Italy]"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Informatics, Systems and Communication, University of Milano-Bicocca, Milan, Italy","institution_ids":["https://openalex.org/I66752286"]},{"raw_affiliation_string":"[Dept. of Informatics, Systems and Communication, University of Milano-Bicocca, Milan, Italy]","institution_ids":["https://openalex.org/I66752286"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":{"value":873,"currency":"EUR","value_usd":941},"fwci":0.8145,"has_fulltext":false,"cited_by_count":13,"citation_normalized_percentile":{"value":0.69806874,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":"25","issue":"11","first_page":"4068","last_page":"4078"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9975000023841858,"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":0.9975000023841858,"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/T10885","display_name":"Gene expression and cancer classification","score":0.9969000220298767,"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/T11287","display_name":"Cancer Genomics and Diagnostics","score":0.9944999814033508,"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/computer-science","display_name":"Computer science","score":0.5777820348739624},{"id":"https://openalex.org/keywords/cluster-analysis","display_name":"Cluster analysis","score":0.5753179788589478},{"id":"https://openalex.org/keywords/cancer","display_name":"Cancer","score":0.4321630895137787},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3860242962837219},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3618297278881073},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.20394712686538696},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.18549710512161255}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5777820348739624},{"id":"https://openalex.org/C73555534","wikidata":"https://www.wikidata.org/wiki/Q622825","display_name":"Cluster analysis","level":2,"score":0.5753179788589478},{"id":"https://openalex.org/C121608353","wikidata":"https://www.wikidata.org/wiki/Q12078","display_name":"Cancer","level":2,"score":0.4321630895137787},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3860242962837219},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3618297278881073},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.20394712686538696},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.18549710512161255}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"D009154","descriptor_name":"Mutation","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":"Q000235","qualifier_name":"genetics","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":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1109/jbhi.2021.3081380","is_oa":false,"landing_page_url":"https://doi.org/10.1109/jbhi.2021.3081380","pdf_url":null,"source":{"id":"https://openalex.org/S2495854775","display_name":"IEEE Journal of Biomedical and Health Informatics","issn_l":"2168-2194","issn":["2168-2194","2168-2208"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Journal of Biomedical and Health Informatics","raw_type":"journal-article"},{"id":"pmid:34003758","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34003758","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":"IEEE journal of biomedical and health informatics","raw_type":null},{"id":"pmh:oai:boa.unimib.it:10281/337209","is_oa":false,"landing_page_url":"http://hdl.handle.net/10281/337209","pdf_url":null,"source":{"id":"https://openalex.org/S4306401259","display_name":"BOA (University of Milano-Bicocca)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I66752286","host_organization_name":"University of Milano-Bicocca","host_organization_lineage":["https://openalex.org/I66752286"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":52,"referenced_works":["https://openalex.org/W160187742","https://openalex.org/W1578099820","https://openalex.org/W1967304777","https://openalex.org/W1971135355","https://openalex.org/W1986888627","https://openalex.org/W2002295829","https://openalex.org/W2016381774","https://openalex.org/W2018045485","https://openalex.org/W2030644393","https://openalex.org/W2074507113","https://openalex.org/W2075013491","https://openalex.org/W2095897464","https://openalex.org/W2110417468","https://openalex.org/W2118587067","https://openalex.org/W2121947440","https://openalex.org/W2122392334","https://openalex.org/W2127218421","https://openalex.org/W2131681506","https://openalex.org/W2132914434","https://openalex.org/W2138615112","https://openalex.org/W2149230623","https://openalex.org/W2160265768","https://openalex.org/W2165232124","https://openalex.org/W2192492580","https://openalex.org/W2260491557","https://openalex.org/W2340974016","https://openalex.org/W2346273585","https://openalex.org/W2358053195","https://openalex.org/W2410468716","https://openalex.org/W2471404629","https://openalex.org/W2603523955","https://openalex.org/W2606812723","https://openalex.org/W2754025713","https://openalex.org/W2762185802","https://openalex.org/W2886661658","https://openalex.org/W2890035501","https://openalex.org/W2899794439","https://openalex.org/W2949688529","https://openalex.org/W3004896733","https://openalex.org/W3015981925","https://openalex.org/W3075371075","https://openalex.org/W3113285045","https://openalex.org/W3183923930","https://openalex.org/W4231029117","https://openalex.org/W4235169531","https://openalex.org/W6606510226","https://openalex.org/W6634702315","https://openalex.org/W6680970901","https://openalex.org/W6736268655","https://openalex.org/W6753898695","https://openalex.org/W6799039940","https://openalex.org/W7028080001"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W2358668433","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W2382290278","https://openalex.org/W2478288626","https://openalex.org/W2350741829","https://openalex.org/W2530322880","https://openalex.org/W1596801655"],"abstract_inverted_index":{"Single":[0],"cell":[1,221],"sequencing":[2,222],"(SCS)":[3],"technologies":[4],"provide":[5],"a":[6,17,44,79,110,176,189,193],"level":[7],"of":[8,27,32,47,71,81,86,158,175,207],"resolution":[9],"that":[10,132,144],"makes":[11,53],"it":[12,54],"indispensable":[13],"for":[14],"inferring":[15],"from":[16,101,163],"sequenced":[18,93],"tumor,":[19],"evolutionary":[20],"trees":[21],"or":[22,120],"phylogenies":[23],"representing":[24,125],"an":[25,72,231],"accumulation":[26],"cancerous":[28],"mutations.":[29],"A":[30],"drawback":[31],"SCS":[33,73,126,208],"is":[34,66,226],"elevated":[35],"false":[36],"negative":[37],"and":[38,61,84,96],"missing":[39],"value":[40],"rates,":[41],"resulting":[42],"in":[43,51,90,147,156,196,214],"large":[45],"space":[46],"possible":[48,64],"solutions,":[49],"which":[50,210],"turn":[52],"difficult,":[55],"sometimes":[56],"infeasible":[57],"using":[58],"current":[59],"approaches":[60],"tools.":[62],"One":[63],"solution":[65],"to":[67,97,188],"reduce":[68],"the":[69,87,91,99,148,159,164,173,181,197,201,205,238],"size":[70,206],"instance":[74,166],"-":[75,95,123],"usually":[76],"represented":[77],"as":[78,234,236],"matrix":[80,121],"presence,":[82],"absence,":[83],"uncertainty":[85],"mutations":[88,135,143],"found":[89],"different":[92],"cells":[94],"infer":[98],"tree":[100],"this":[102,106,169],"reduced-size":[103],"instance.":[104],"In":[105],"work,":[107],"we":[108],"present":[109],"new":[111],"clustering":[112,116,177,219],"procedure":[113],"aimed":[114],"at":[115,228,243],"such":[117],"categorical":[118],"vector,":[119],"data":[122,223],"here":[124],"instances,":[127],"called":[128],"celluloid.":[129],"We":[130,171],"show":[131],"celluloid":[133],"clusters":[134],"with":[136],"high":[137],"precision:":[138],"never":[139],"pairing":[140],"too":[141],"many":[142],"are":[145],"unrelated":[146],"ground":[149],"truth,":[150],"but":[151],"also":[152],"obtains":[153],"accurate":[154],"results":[155],"terms":[157],"phylogeny":[160],"inferred":[161],"downstream":[162],"reduced":[165],"produced":[167],"by":[168,179],"method.":[170],"demonstrate":[172],"usefulness":[174],"step":[178],"applying":[180],"entire":[182],"pipeline":[183],"(clustering":[184],"+":[185],"inference":[186],"method)":[187],"real":[190],"dataset,":[191],"showing":[192],"significant":[194],"reduction":[195],"runtime,":[198],"raising":[199],"considerably":[200],"upper":[202],"bound":[203],"on":[204,237],"instances":[209],"can":[211],"be":[212],"solved":[213],"practice.":[215],"Our":[216],"approach,":[217],"celluloid:":[218],"single":[220],"around":[224],"centroids":[225],"available":[227],"https://github.com/AlgoLab/celluloid/":[229],"under":[230],"MIT":[232],"license,":[233],"well":[235],"Python":[239],"Package":[240],"Index":[241],"(PyPI)":[242],"https://pypi.org/project/celluloid-clust/.":[244]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":4},{"year":2021,"cited_by_count":6}],"updated_date":"2026-07-29T09:40:50.615796","created_date":"2025-10-10T00:00:00"}
