{"id":"https://openalex.org/W4297183135","doi":"https://doi.org/10.1093/bib/bbac385","title":"A review and performance evaluation of clustering frameworks for single-cell Hi-C data","display_name":"A review and performance evaluation of clustering frameworks for single-cell Hi-C data","publication_year":2022,"publication_date":"2022-09-23","ids":{"openalex":"https://openalex.org/W4297183135","doi":"https://doi.org/10.1093/bib/bbac385","pmid":"https://pubmed.ncbi.nlm.nih.gov/36151714"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbac385","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbac385","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":"review","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/A5072414028","display_name":"Caiwei Zhen","orcid":"https://orcid.org/0000-0002-4209-2914"},"institutions":[{"id":"https://openalex.org/I17145004","display_name":"Northwestern Polytechnical University","ror":"https://ror.org/01y0j0j86","country_code":"CN","type":"education","lineage":["https://openalex.org/I17145004"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Caiwei Zhen","raw_affiliation_strings":["Key Laboratory of Big Data Storage and Management, Northwestern Polytechnical University , 710072, Xi\u2019an , China","School of Computer Science, Northwestern Polytechnical University , 710072, Xi\u2019an , China"],"affiliations":[{"raw_affiliation_string":"Key Laboratory of Big Data Storage and Management, Northwestern Polytechnical University , 710072, Xi\u2019an , China","institution_ids":["https://openalex.org/I17145004"]},{"raw_affiliation_string":"School of Computer Science, Northwestern Polytechnical University , 710072, Xi\u2019an , China","institution_ids":["https://openalex.org/I17145004"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101477538","display_name":"Yuxian Wang","orcid":"https://orcid.org/0009-0004-8810-3641"},"institutions":[{"id":"https://openalex.org/I17145004","display_name":"Northwestern Polytechnical University","ror":"https://ror.org/01y0j0j86","country_code":"CN","type":"education","lineage":["https://openalex.org/I17145004"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yuxian Wang","raw_affiliation_strings":["Key Laboratory of Big Data Storage and Management, Northwestern Polytechnical University , 710072, Xi\u2019an , China","School of Computer Science, Northwestern Polytechnical University , 710072, Xi\u2019an , China"],"affiliations":[{"raw_affiliation_string":"Key Laboratory of Big Data Storage and Management, Northwestern Polytechnical University , 710072, Xi\u2019an , China","institution_ids":["https://openalex.org/I17145004"]},{"raw_affiliation_string":"School of Computer Science, Northwestern Polytechnical University , 710072, Xi\u2019an , China","institution_ids":["https://openalex.org/I17145004"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073311770","display_name":"Jiaquan Geng","orcid":null},"institutions":[{"id":"https://openalex.org/I17145004","display_name":"Northwestern Polytechnical University","ror":"https://ror.org/01y0j0j86","country_code":"CN","type":"education","lineage":["https://openalex.org/I17145004"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jiaquan Geng","raw_affiliation_strings":["Key Laboratory of Big Data Storage and Management, Northwestern Polytechnical University , 710072, Xi\u2019an , China","School of Computer Science, Northwestern Polytechnical University , 710072, Xi\u2019an , China"],"affiliations":[{"raw_affiliation_string":"Key Laboratory of Big Data Storage and Management, Northwestern Polytechnical University , 710072, Xi\u2019an , China","institution_ids":["https://openalex.org/I17145004"]},{"raw_affiliation_string":"School of Computer Science, Northwestern Polytechnical University , 710072, Xi\u2019an , China","institution_ids":["https://openalex.org/I17145004"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100625412","display_name":"Lu Han","orcid":"https://orcid.org/0000-0001-9759-1537"},"institutions":[{"id":"https://openalex.org/I17145004","display_name":"Northwestern Polytechnical University","ror":"https://ror.org/01y0j0j86","country_code":"CN","type":"education","lineage":["https://openalex.org/I17145004"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Lu Han","raw_affiliation_strings":["Key Laboratory of Big Data Storage and Management, Northwestern Polytechnical University , 710072, Xi\u2019an , China","School of Computer Science, Northwestern Polytechnical University , 710072, Xi\u2019an , China"],"affiliations":[{"raw_affiliation_string":"Key Laboratory of Big Data Storage and Management, Northwestern Polytechnical University , 710072, Xi\u2019an , China","institution_ids":["https://openalex.org/I17145004"]},{"raw_affiliation_string":"School of Computer Science, Northwestern Polytechnical University , 710072, Xi\u2019an , China","institution_ids":["https://openalex.org/I17145004"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100399433","display_name":"Jingyi Li","orcid":"https://orcid.org/0009-0004-8823-7658"},"institutions":[{"id":"https://openalex.org/I17145004","display_name":"Northwestern Polytechnical University","ror":"https://ror.org/01y0j0j86","country_code":"CN","type":"education","lineage":["https://openalex.org/I17145004"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jingyi Li","raw_affiliation_strings":["Key Laboratory of Big Data Storage and Management, Northwestern Polytechnical University , 710072, Xi\u2019an , China","School of Computer Science, Northwestern Polytechnical University , 710072, Xi\u2019an , China"],"affiliations":[{"raw_affiliation_string":"Key Laboratory of Big Data Storage and Management, Northwestern Polytechnical University , 710072, Xi\u2019an , China","institution_ids":["https://openalex.org/I17145004"]},{"raw_affiliation_string":"School of Computer Science, Northwestern Polytechnical University , 710072, Xi\u2019an , China","institution_ids":["https://openalex.org/I17145004"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5018385000","display_name":"Jinghao Peng","orcid":"https://orcid.org/0000-0001-5481-784X"},"institutions":[{"id":"https://openalex.org/I17145004","display_name":"Northwestern Polytechnical University","ror":"https://ror.org/01y0j0j86","country_code":"CN","type":"education","lineage":["https://openalex.org/I17145004"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jinghao Peng","raw_affiliation_strings":["Key Laboratory of Big Data Storage and Management, Northwestern Polytechnical University , 710072, Xi\u2019an , China","School of Computer Science, Northwestern Polytechnical University , 710072, Xi\u2019an , China"],"affiliations":[{"raw_affiliation_string":"Key Laboratory of Big Data Storage and Management, Northwestern Polytechnical University , 710072, Xi\u2019an , China","institution_ids":["https://openalex.org/I17145004"]},{"raw_affiliation_string":"School of Computer Science, Northwestern Polytechnical University , 710072, Xi\u2019an , China","institution_ids":["https://openalex.org/I17145004"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100453553","display_name":"Tao Wang","orcid":"https://orcid.org/0000-0002-5728-6463"},"institutions":[{"id":"https://openalex.org/I17145004","display_name":"Northwestern Polytechnical University","ror":"https://ror.org/01y0j0j86","country_code":"CN","type":"education","lineage":["https://openalex.org/I17145004"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Tao Wang","raw_affiliation_strings":["Key Laboratory of Big Data Storage and Management, Northwestern Polytechnical University , 710072, Xi\u2019an , China","School of Computer Science, Northwestern Polytechnical University , 710072, Xi\u2019an , China"],"affiliations":[{"raw_affiliation_string":"Key Laboratory of Big Data Storage and Management, Northwestern Polytechnical University , 710072, Xi\u2019an , China","institution_ids":["https://openalex.org/I17145004"]},{"raw_affiliation_string":"School of Computer Science, Northwestern Polytechnical University , 710072, Xi\u2019an , China","institution_ids":["https://openalex.org/I17145004"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5047509839","display_name":"Jianye Hao","orcid":"https://orcid.org/0000-0002-0422-8235"},"institutions":[{"id":"https://openalex.org/I162868743","display_name":"Tianjin University","ror":"https://ror.org/012tb2g32","country_code":"CN","type":"education","lineage":["https://openalex.org/I162868743"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jianye Hao","raw_affiliation_strings":["School of Computer Software, Tianjin University , 300350, Tianjin , China"],"affiliations":[{"raw_affiliation_string":"School of Computer Software, Tianjin University , 300350, Tianjin , China","institution_ids":["https://openalex.org/I162868743"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5009944817","display_name":"Xuequn Shang","orcid":"https://orcid.org/0000-0002-7249-8210"},"institutions":[{"id":"https://openalex.org/I17145004","display_name":"Northwestern Polytechnical University","ror":"https://ror.org/01y0j0j86","country_code":"CN","type":"education","lineage":["https://openalex.org/I17145004"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xuequn Shang","raw_affiliation_strings":["Key Laboratory of Big Data Storage and Management, Northwestern Polytechnical University , 710072, Xi\u2019an , China","School of Computer Science, Northwestern Polytechnical University , 710072, Xi\u2019an , China"],"affiliations":[{"raw_affiliation_string":"Key Laboratory of Big Data Storage and Management, Northwestern Polytechnical University , 710072, Xi\u2019an , China","institution_ids":["https://openalex.org/I17145004"]},{"raw_affiliation_string":"School of Computer Science, Northwestern Polytechnical University , 710072, Xi\u2019an , China","institution_ids":["https://openalex.org/I17145004"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5011504177","display_name":"Zhongyu Wei","orcid":"https://orcid.org/0000-0003-3789-8507"},"institutions":[{"id":"https://openalex.org/I17145004","display_name":"Northwestern Polytechnical University","ror":"https://ror.org/01y0j0j86","country_code":"CN","type":"education","lineage":["https://openalex.org/I17145004"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Zhongyu Wei","raw_affiliation_strings":["School of Computer Science, Northwestern Polytechnical University , 710072, Xi\u2019an , China"],"affiliations":[{"raw_affiliation_string":"School of Computer Science, Northwestern Polytechnical University , 710072, Xi\u2019an , China","institution_ids":["https://openalex.org/I17145004"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5038915198","display_name":"Peican Zhu","orcid":"https://orcid.org/0000-0002-8389-1093"},"institutions":[{"id":"https://openalex.org/I17145004","display_name":"Northwestern Polytechnical University","ror":"https://ror.org/01y0j0j86","country_code":"CN","type":"education","lineage":["https://openalex.org/I17145004"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Peican Zhu","raw_affiliation_strings":["School of Computer Science, Northwestern Polytechnical University , 710072, Xi\u2019an , China"],"affiliations":[{"raw_affiliation_string":"School of Computer Science, Northwestern Polytechnical University , 710072, Xi\u2019an , China","institution_ids":["https://openalex.org/I17145004"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5084343474","display_name":"Jiajie Peng","orcid":"https://orcid.org/0000-0002-3857-7927"},"institutions":[{"id":"https://openalex.org/I17145004","display_name":"Northwestern Polytechnical University","ror":"https://ror.org/01y0j0j86","country_code":"CN","type":"education","lineage":["https://openalex.org/I17145004"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Jiajie Peng","raw_affiliation_strings":["Key Laboratory of Big Data Storage and Management, Northwestern Polytechnical University , 710072, Xi\u2019an , China","School of Computer Science, Northwestern Polytechnical University , 710072, Xi\u2019an , China"],"affiliations":[{"raw_affiliation_string":"Key Laboratory of Big Data Storage and Management, Northwestern Polytechnical University , 710072, Xi\u2019an , China","institution_ids":["https://openalex.org/I17145004"]},{"raw_affiliation_string":"School of Computer Science, Northwestern Polytechnical University , 710072, Xi\u2019an , China","institution_ids":["https://openalex.org/I17145004"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":12,"corresponding_author_ids":["https://openalex.org/A5011504177","https://openalex.org/A5038915198","https://openalex.org/A5084343474"],"corresponding_institution_ids":["https://openalex.org/I17145004"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":1.0293,"has_fulltext":false,"cited_by_count":12,"citation_normalized_percentile":{"value":0.75007081,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":96,"max":98},"biblio":{"volume":"23","issue":"6","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":0.9998999834060669,"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":0.9998999834060669,"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":0.9970999956130981,"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":0.9934999942779541,"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/cluster-analysis","display_name":"Cluster analysis","score":0.8365093469619751},{"id":"https://openalex.org/keywords/rand-index","display_name":"Rand index","score":0.7874987125396729},{"id":"https://openalex.org/keywords/benchmark","display_name":"Benchmark (surveying)","score":0.7215636968612671},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6828848123550415},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.5567170977592468},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.5257195830345154},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.5001161098480225},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4219732880592346},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3216957449913025},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.23230621218681335},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.20129969716072083},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.10056889057159424}],"concepts":[{"id":"https://openalex.org/C73555534","wikidata":"https://www.wikidata.org/wiki/Q622825","display_name":"Cluster analysis","level":2,"score":0.8365093469619751},{"id":"https://openalex.org/C111442797","wikidata":"https://www.wikidata.org/wiki/Q7291446","display_name":"Rand index","level":3,"score":0.7874987125396729},{"id":"https://openalex.org/C185798385","wikidata":"https://www.wikidata.org/wiki/Q1161707","display_name":"Benchmark (surveying)","level":2,"score":0.7215636968612671},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6828848123550415},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.5567170977592468},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.5257195830345154},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.5001161098480225},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4219732880592346},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3216957449913025},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.23230621218681335},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.20129969716072083},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.10056889057159424},{"id":"https://openalex.org/C13280743","wikidata":"https://www.wikidata.org/wiki/Q131089","display_name":"Geodesy","level":1,"score":0.0},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002875","descriptor_name":"Chromosomes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002875","descriptor_name":"Chromosomes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002875","descriptor_name":"Chromosomes","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":"D008968","descriptor_name":"Molecular Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008968","descriptor_name":"Molecular Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008968","descriptor_name":"Molecular Conformation","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},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bib/bbac385","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbac385","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:36151714","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/36151714","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":[{"id":"https://metadata.un.org/sdg/17","score":0.47999998927116394,"display_name":"Partnerships for the goals"}],"awards":[{"id":"https://openalex.org/G1287980616","display_name":null,"funder_award_id":"U1811262","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G4425697385","display_name":null,"funder_award_id":"62073263","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G535927982","display_name":null,"funder_award_id":"62072376","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"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":76,"referenced_works":["https://openalex.org/W94742175","https://openalex.org/W1492083415","https://openalex.org/W1498436455","https://openalex.org/W1602702667","https://openalex.org/W1631320694","https://openalex.org/W1887325245","https://openalex.org/W1889137377","https://openalex.org/W1902027874","https://openalex.org/W1965863160","https://openalex.org/W1986232151","https://openalex.org/W1993570130","https://openalex.org/W2001082470","https://openalex.org/W2023186182","https://openalex.org/W2027461913","https://openalex.org/W2030644393","https://openalex.org/W2034632386","https://openalex.org/W2068315875","https://openalex.org/W2073026107","https://openalex.org/W2073459066","https://openalex.org/W2090037139","https://openalex.org/W2102212449","https://openalex.org/W2110527401","https://openalex.org/W2121690903","https://openalex.org/W2139891717","https://openalex.org/W2152751895","https://openalex.org/W2157232603","https://openalex.org/W2162833336","https://openalex.org/W2170798597","https://openalex.org/W2177066871","https://openalex.org/W2388443421","https://openalex.org/W2491201136","https://openalex.org/W2522581443","https://openalex.org/W2572662684","https://openalex.org/W2582946425","https://openalex.org/W2599773520","https://openalex.org/W2731989040","https://openalex.org/W2736547131","https://openalex.org/W2744040456","https://openalex.org/W2750049634","https://openalex.org/W2766950670","https://openalex.org/W2789774764","https://openalex.org/W2790768464","https://openalex.org/W2933433092","https://openalex.org/W2934716754","https://openalex.org/W2949773289","https://openalex.org/W2950909085","https://openalex.org/W2951050465","https://openalex.org/W2951559295","https://openalex.org/W2952940726","https://openalex.org/W2952979547","https://openalex.org/W2963695795","https://openalex.org/W2972380686","https://openalex.org/W3012994109","https://openalex.org/W3025143530","https://openalex.org/W3045200674","https://openalex.org/W3087339707","https://openalex.org/W3126516421","https://openalex.org/W3131501965","https://openalex.org/W3152332785","https://openalex.org/W3159468299","https://openalex.org/W3159506143","https://openalex.org/W3163892338","https://openalex.org/W3194728593","https://openalex.org/W3198741502","https://openalex.org/W3207880742","https://openalex.org/W4221125917","https://openalex.org/W4235169531","https://openalex.org/W6628595012","https://openalex.org/W6639619044","https://openalex.org/W6684050148","https://openalex.org/W6726873649","https://openalex.org/W6748799445","https://openalex.org/W6748816842","https://openalex.org/W6770147432","https://openalex.org/W6777878942","https://openalex.org/W6783435184"],"related_works":["https://openalex.org/W2761244844","https://openalex.org/W2085268214","https://openalex.org/W2291178738","https://openalex.org/W2160396543","https://openalex.org/W3066205586","https://openalex.org/W4253705005","https://openalex.org/W4245045784","https://openalex.org/W2103330636","https://openalex.org/W2542243181","https://openalex.org/W1974647637"],"abstract_inverted_index":{"The":[0],"three-dimensional":[1],"genome":[2,23,37],"structure":[3,24,38],"plays":[4],"a":[5,45],"key":[6],"role":[7],"in":[8,91],"cellular":[9],"function":[10],"and":[11,84,95,113],"gene":[12],"regulation.":[13],"Single-cell":[14],"Hi-C":[15,53,67,139],"(high-resolution":[16],"chromosome":[17],"conformation":[18],"capture)":[19],"technology":[20],"can":[21],"capture":[22],"information":[25],"at":[26,129],"the":[27,32,120,124,133],"cell":[28,42,134],"level,":[29],"which":[30],"provides":[31],"opportunity":[33],"to":[34,71],"study":[35,63],"how":[36],"varies":[39],"among":[40],"different":[41,130],"types.":[43],"Recently,":[44],"few":[46],"methods":[47,70,90,122],"are":[48],"well":[49],"designed":[50],"for":[51,76,123],"single-cell":[52,66,138],"clustering.":[54],"In":[55],"this":[56],"manuscript,":[57],"we":[58,117],"perform":[59],"an":[60,73],"in-depth":[61],"benchmark":[62,103],"of":[64,93,126,132],"available":[65],"data":[68],"clustering":[69,78,96],"implement":[72],"evaluation":[74],"system":[75],"multiple":[77],"frameworks":[79],"based":[80,136],"on":[81,137],"both":[82],"human":[83],"mouse":[85],"datasets.":[86],"We":[87],"compare":[88],"eight":[89,121],"terms":[92],"visualization":[94],"performance.":[97],"Performance":[98],"is":[99],"evaluated":[100],"using":[101],"four":[102],"metrics":[104],"including":[105],"adjusted":[106],"rand":[107],"index,":[108],"normalized":[109],"mutual":[110],"information,":[111],"homogeneity":[112],"Fowlkes-Mallows":[114],"index.":[115],"Furthermore,":[116],"also":[118],"evaluate":[119],"task":[125],"separating":[127],"cells":[128],"stages":[131],"cycle":[135],"data.":[140]},"counts_by_year":[{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":6},{"year":2023,"cited_by_count":3}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
