{"id":"https://openalex.org/W4225726657","doi":"https://doi.org/10.1093/bioinformatics/btab795","title":"Hubness reduction improves clustering and trajectory inference in single-cell transcriptomic data","display_name":"Hubness reduction improves clustering and trajectory inference in single-cell transcriptomic data","publication_year":2021,"publication_date":"2021-11-17","ids":{"openalex":"https://openalex.org/W4225726657","doi":"https://doi.org/10.1093/bioinformatics/btab795","pmid":"https://pubmed.ncbi.nlm.nih.gov/34871374"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btab795","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab795","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://hal.science/hal-03226626","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5067681077","display_name":"Elise Amblard","orcid":"https://orcid.org/0000-0002-1491-6947"},"institutions":[{"id":"https://openalex.org/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I204730241","display_name":"Universit\u00e9 Paris Cit\u00e9","ror":"https://ror.org/05f82e368","country_code":"FR","type":"education","lineage":["https://openalex.org/I204730241"]},{"id":"https://openalex.org/I4387154437","display_name":"HIPI -  Immunologie humaine, physiopathologie et immunith\u00e9rapie","ror":"https://ror.org/008e1sp22","country_code":"FR","type":"facility","lineage":["https://openalex.org/I154526488","https://openalex.org/I204730241","https://openalex.org/I4387154437"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Elise Amblard","raw_affiliation_strings":["Universit\u00e9 de Paris, INSERM, HIPI , F-75010 Paris, France"],"raw_orcid":"https://orcid.org/0000-0002-1491-6947","affiliations":[{"raw_affiliation_string":"Universit\u00e9 de Paris, INSERM, HIPI , F-75010 Paris, France","institution_ids":["https://openalex.org/I154526488","https://openalex.org/I204730241","https://openalex.org/I4387154437"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5025746657","display_name":"Jonathan Bac","orcid":"https://orcid.org/0000-0002-8504-5448"},"institutions":[{"id":"https://openalex.org/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I2746051580","display_name":"Universit\u00e9 Paris Sciences et Lettres","ror":"https://ror.org/013cjyk83","country_code":"FR","type":"education","lineage":["https://openalex.org/I2746051580"]},{"id":"https://openalex.org/I70768539","display_name":"\u00c9cole Nationale Sup\u00e9rieure des Mines de Paris","ror":"https://ror.org/04y8cs423","country_code":"FR","type":"education","lineage":["https://openalex.org/I190752583","https://openalex.org/I2746051580","https://openalex.org/I70768539"]},{"id":"https://openalex.org/I80043","display_name":"Institut Curie","ror":"https://ror.org/04t0gwh46","country_code":"FR","type":"nonprofit","lineage":["https://openalex.org/I80043"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Jonathan Bac","raw_affiliation_strings":["CBIO-Centre for Computational Biology, Mines ParisTech, PSL Research University , 75006 Paris, France","INSERM, U900 , F-75005 Paris, France","Institut Curie, PSL Research University , F-75005 Paris, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"CBIO-Centre for Computational Biology, Mines ParisTech, PSL Research University , 75006 Paris, France","institution_ids":["https://openalex.org/I2746051580","https://openalex.org/I70768539"]},{"raw_affiliation_string":"INSERM, U900 , F-75005 Paris, France","institution_ids":["https://openalex.org/I154526488"]},{"raw_affiliation_string":"Institut Curie, PSL Research University , F-75005 Paris, France","institution_ids":["https://openalex.org/I2746051580","https://openalex.org/I80043"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5108146227","display_name":"Alexander Chervov","orcid":null},"institutions":[{"id":"https://openalex.org/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I2746051580","display_name":"Universit\u00e9 Paris Sciences et Lettres","ror":"https://ror.org/013cjyk83","country_code":"FR","type":"education","lineage":["https://openalex.org/I2746051580"]},{"id":"https://openalex.org/I70768539","display_name":"\u00c9cole Nationale Sup\u00e9rieure des Mines de Paris","ror":"https://ror.org/04y8cs423","country_code":"FR","type":"education","lineage":["https://openalex.org/I190752583","https://openalex.org/I2746051580","https://openalex.org/I70768539"]},{"id":"https://openalex.org/I80043","display_name":"Institut Curie","ror":"https://ror.org/04t0gwh46","country_code":"FR","type":"nonprofit","lineage":["https://openalex.org/I80043"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Alexander Chervov","raw_affiliation_strings":["CBIO-Centre for Computational Biology, Mines ParisTech, PSL Research University , 75006 Paris, France","INSERM, U900 , F-75005 Paris, France","Institut Curie, PSL Research University , F-75005 Paris, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"CBIO-Centre for Computational Biology, Mines ParisTech, PSL Research University , 75006 Paris, France","institution_ids":["https://openalex.org/I2746051580","https://openalex.org/I70768539"]},{"raw_affiliation_string":"INSERM, U900 , F-75005 Paris, France","institution_ids":["https://openalex.org/I154526488"]},{"raw_affiliation_string":"Institut Curie, PSL Research University , F-75005 Paris, France","institution_ids":["https://openalex.org/I2746051580","https://openalex.org/I80043"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5030011719","display_name":"Vassili Soumelis","orcid":"https://orcid.org/0000-0003-1849-9834"},"institutions":[{"id":"https://openalex.org/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I204730241","display_name":"Universit\u00e9 Paris Cit\u00e9","ror":"https://ror.org/05f82e368","country_code":"FR","type":"education","lineage":["https://openalex.org/I204730241"]},{"id":"https://openalex.org/I4387154437","display_name":"HIPI -  Immunologie humaine, physiopathologie et immunith\u00e9rapie","ror":"https://ror.org/008e1sp22","country_code":"FR","type":"facility","lineage":["https://openalex.org/I154526488","https://openalex.org/I204730241","https://openalex.org/I4387154437"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Vassili Soumelis","raw_affiliation_strings":["Universit\u00e9 de Paris, INSERM, HIPI , F-75010 Paris, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Universit\u00e9 de Paris, INSERM, HIPI , F-75010 Paris, France","institution_ids":["https://openalex.org/I154526488","https://openalex.org/I204730241","https://openalex.org/I4387154437"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5077253721","display_name":"Andre\u00ef Zinovyev","orcid":"https://orcid.org/0000-0002-9517-7284"},"institutions":[{"id":"https://openalex.org/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I2746051580","display_name":"Universit\u00e9 Paris Sciences et Lettres","ror":"https://ror.org/013cjyk83","country_code":"FR","type":"education","lineage":["https://openalex.org/I2746051580"]},{"id":"https://openalex.org/I70768539","display_name":"\u00c9cole Nationale Sup\u00e9rieure des Mines de Paris","ror":"https://ror.org/04y8cs423","country_code":"FR","type":"education","lineage":["https://openalex.org/I190752583","https://openalex.org/I2746051580","https://openalex.org/I70768539"]},{"id":"https://openalex.org/I79563041","display_name":"N. I. Lobachevsky State University of Nizhny Novgorod","ror":"https://ror.org/01bb1zm18","country_code":"RU","type":"education","lineage":["https://openalex.org/I79563041"]},{"id":"https://openalex.org/I80043","display_name":"Institut Curie","ror":"https://ror.org/04t0gwh46","country_code":"FR","type":"nonprofit","lineage":["https://openalex.org/I80043"]}],"countries":["FR","RU"],"is_corresponding":true,"raw_author_name":"Andrei Zinovyev","raw_affiliation_strings":["CBIO-Centre for Computational Biology, Mines ParisTech, PSL Research University , 75006 Paris, France","INSERM, U900 , F-75005 Paris, France","Institut Curie, PSL Research University , F-75005 Paris, France","Laboratory of Advanced Methods for High-Dimensional Data Analysis, Lobachevsky University , 603000 Nizhny Novgorod, Russia"],"raw_orcid":"https://orcid.org/0000-0002-9517-7284","affiliations":[{"raw_affiliation_string":"CBIO-Centre for Computational Biology, Mines ParisTech, PSL Research University , 75006 Paris, France","institution_ids":["https://openalex.org/I2746051580","https://openalex.org/I70768539"]},{"raw_affiliation_string":"INSERM, U900 , F-75005 Paris, France","institution_ids":["https://openalex.org/I154526488"]},{"raw_affiliation_string":"Institut Curie, PSL Research University , F-75005 Paris, France","institution_ids":["https://openalex.org/I2746051580","https://openalex.org/I80043"]},{"raw_affiliation_string":"Laboratory of Advanced Methods for High-Dimensional Data Analysis, Lobachevsky University , 603000 Nizhny Novgorod, Russia","institution_ids":["https://openalex.org/I79563041"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5077253721"],"corresponding_institution_ids":["https://openalex.org/I154526488","https://openalex.org/I2746051580","https://openalex.org/I70768539","https://openalex.org/I79563041","https://openalex.org/I80043"],"apc_list":{"value":3478,"currency":"USD","value_usd":3478},"apc_paid":null,"fwci":0.2238,"has_fulltext":false,"cited_by_count":5,"citation_normalized_percentile":{"value":0.50638064,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":88,"max":96},"biblio":{"volume":"38","issue":"4","first_page":"1045","last_page":"1051"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9991999864578247,"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":0.9991999864578247,"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":9.999999747378752e-05,"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":0.0,"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/dimensionality-reduction","display_name":"Dimensionality reduction","score":0.7923250794410706},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7403679490089417},{"id":"https://openalex.org/keywords/inference","display_name":"Inference","score":0.689353346824646},{"id":"https://openalex.org/keywords/cluster-analysis","display_name":"Cluster analysis","score":0.6560831069946289},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.5862959623336792},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.5147988200187683},{"id":"https://openalex.org/keywords/curse-of-dimensionality","display_name":"Curse of dimensionality","score":0.5047024488449097},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.43781906366348267},{"id":"https://openalex.org/keywords/neighbourhood","display_name":"Neighbourhood (mathematics)","score":0.4249423146247864},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.3244452476501465},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.28108060359954834},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.18756422400474548},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.1599425971508026}],"concepts":[{"id":"https://openalex.org/C70518039","wikidata":"https://www.wikidata.org/wiki/Q16000077","display_name":"Dimensionality reduction","level":2,"score":0.7923250794410706},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7403679490089417},{"id":"https://openalex.org/C2776214188","wikidata":"https://www.wikidata.org/wiki/Q408386","display_name":"Inference","level":2,"score":0.689353346824646},{"id":"https://openalex.org/C73555534","wikidata":"https://www.wikidata.org/wiki/Q622825","display_name":"Cluster analysis","level":2,"score":0.6560831069946289},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.5862959623336792},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.5147988200187683},{"id":"https://openalex.org/C111030470","wikidata":"https://www.wikidata.org/wiki/Q1430460","display_name":"Curse of dimensionality","level":2,"score":0.5047024488449097},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.43781906366348267},{"id":"https://openalex.org/C161677786","wikidata":"https://www.wikidata.org/wiki/Q2478475","display_name":"Neighbourhood (mathematics)","level":2,"score":0.4249423146247864},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.3244452476501465},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.28108060359954834},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.18756422400474548},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.1599425971508026},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0}],"mesh":[{"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":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btab795","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab795","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:34871374","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34871374","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":"Bioinformatics (Oxford, England)","raw_type":"Journal Article"},{"id":"pmh:oai:HAL:hal-03226626v1","is_oa":true,"landing_page_url":"https://hal.science/hal-03226626","pdf_url":null,"source":{"id":"https://openalex.org/S4306402512","display_name":"HAL (Le Centre pour la Communication Scientifique Directe)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1294671590","host_organization_name":"Centre National de la Recherche Scientifique","host_organization_lineage":["https://openalex.org/I1294671590"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics (Oxford, England), 2021, btab795, ⟨10.1093/bioinformatics/btab795⟩","raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":{"id":"pmh:oai:HAL:hal-03226626v1","is_oa":true,"landing_page_url":"https://hal.science/hal-03226626","pdf_url":null,"source":{"id":"https://openalex.org/S4306402512","display_name":"HAL (Le Centre pour la Communication Scientifique Directe)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1294671590","host_organization_name":"Centre National de la Recherche Scientifique","host_organization_lineage":["https://openalex.org/I1294671590"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics (Oxford, England), 2021, btab795, ⟨10.1093/bioinformatics/btab795⟩","raw_type":"info:eu-repo/semantics/article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/11","display_name":"Sustainable cities and communities","score":0.7400000095367432}],"awards":[{"id":"https://openalex.org/G559330355","display_name":"Ecole Universitaire de Recherche Interdisciplinaire de Paris","funder_award_id":"ANR-17-EURE-0012","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G5773767721","display_name":null,"funder_award_id":"075-15-2021-634","funder_id":"https://openalex.org/F4320327494","funder_display_name":"Ministry of Science and Higher Education of the Russian Federation"},{"id":"https://openalex.org/G5838787665","display_name":"PaRis Artificial Intelligence Research InstitutE","funder_award_id":"ANR-19-P3IA-0001","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"}],"funders":[{"id":"https://openalex.org/F4320320883","display_name":"Agence Nationale de la Recherche","ror":"https://ror.org/00rbzpz17"},{"id":"https://openalex.org/F4320327494","display_name":"Ministry of Science and Higher Education of the Russian Federation","ror":null}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":38,"referenced_works":["https://openalex.org/W237382180","https://openalex.org/W1612304093","https://openalex.org/W2006554089","https://openalex.org/W2096630704","https://openalex.org/W2127017215","https://openalex.org/W2132862423","https://openalex.org/W2178888844","https://openalex.org/W2332292689","https://openalex.org/W2778345128","https://openalex.org/W2784010521","https://openalex.org/W2800392236","https://openalex.org/W2803107279","https://openalex.org/W2884197618","https://openalex.org/W2907783748","https://openalex.org/W2927507212","https://openalex.org/W2947877009","https://openalex.org/W2949067670","https://openalex.org/W2949237386","https://openalex.org/W2950372712","https://openalex.org/W2951215318","https://openalex.org/W2971653850","https://openalex.org/W2989716250","https://openalex.org/W2996274328","https://openalex.org/W2999763174","https://openalex.org/W3002770500","https://openalex.org/W3005127469","https://openalex.org/W3005618819","https://openalex.org/W3010805239","https://openalex.org/W3021639139","https://openalex.org/W3099661174","https://openalex.org/W3100210986","https://openalex.org/W3105148046","https://openalex.org/W3198796775","https://openalex.org/W3206571981","https://openalex.org/W4244203357","https://openalex.org/W6674688867","https://openalex.org/W6678785889","https://openalex.org/W6683305289"],"related_works":["https://openalex.org/W1995622179","https://openalex.org/W1484111231","https://openalex.org/W1552543208","https://openalex.org/W2074396517","https://openalex.org/W2166963679","https://openalex.org/W2187269125","https://openalex.org/W1641615907","https://openalex.org/W3089231081","https://openalex.org/W2093956241","https://openalex.org/W2354420595"],"abstract_inverted_index":{"MOTIVATION:":[0],"Single-cell":[1],"RNA-seq":[2],"(scRNAseq)":[3],"datasets":[4,170,229],"are":[5,245],"characterized":[6,171],"by":[7,17,83,172],"large":[8,39,173,205],"ambient":[9],"dimensionality,":[10],"and":[11,124,147,164,230],"their":[12],"analyses":[13],"can":[14,70,195,212],"be":[15,71,196,213],"affected":[16],"various":[18,111,188],"manifestations":[19,27],"of":[20,25,34,55,110,190,201,234],"the":[21,29,44,52,80,120,199,228,232],"dimensionality":[22,62,207,218],"curse.":[23],"One":[24],"these":[26],"is":[28,115,177,237],"hubness":[30,90,112,133,194],"phenomenon,":[31],"i.e.":[32],"existence":[33],"data":[35,182,203,244],"points":[36],"with":[37,117,138,204],"surprisingly":[38],"incoming":[40],"connectivity":[41],"degree":[42],"in":[43,59,79,91,127,208],"datapoint":[45],"neighbourhood":[46,136,156,184],"graph.":[47],"Conventional":[48],"approach":[49],"to":[50,119,216,226],"dampen":[51],"unwanted":[53],"effects":[54],"high":[56],"dimension":[57],"consists":[58],"applying":[60,143],"drastic":[61,217],"reduction.":[63,219],"It":[64],"remains":[65],"unexplored":[66],"if":[67],"this":[68,235],"step":[69],"avoided":[72],"thus":[73],"retaining":[74],"more":[75,140],"information":[76],"than":[77],"contained":[78],"low-dimensional":[81],"projections,":[82],"correcting":[84],"directly":[85],"hubness.":[86],"RESULTS:":[87],"We":[88,94,130],"investigated":[89,116],"scRNAseq":[92,128,202],"data.":[93],"show":[95,131],"that":[96,132,148],"hub":[97],"cells":[98],"do":[99],"not":[100],"represent":[101],"any":[102],"visible":[103],"technical":[104],"or":[105],"biological":[106],"bias.":[107],"The":[108,223],"effect":[109],"reduction":[113,134],"methods":[114,153],"respect":[118],"clustering,":[121,161],"trajectory":[122,162],"inference":[123,163],"visualization":[125,165],"tasks":[126],"datasets.":[129,192],"generates":[135],"graphs":[137,185],"properties":[139],"suitable":[141],"for":[142,154,169,187,198],"machine":[144],"learning":[145],"methods;":[146],"it":[149,211],"outperforms":[150],"other":[151],"state-of-the-art":[152],"improving":[155],"graphs.":[157],"As":[158],"a":[159],"consequence,":[160],"perform":[166],"better,":[167],"especially":[168],"intrinsic":[174,206],"dimensionality.":[175],"Hubness":[176],"an":[178,214],"important":[179],"phenomenon":[180],"characterizing":[181],"point":[183],"computed":[186],"types":[189],"sequencing":[191],"Reducing":[193],"beneficial":[197],"analysis":[200],"which":[209],"case":[210],"alternative":[215],"AVAILABILITY":[220],"AND":[221],"IMPLEMENTATION:":[222],"code":[224],"used":[225],"analyze":[227],"produce":[231],"figures":[233],"article":[236],"available":[238,246],"from":[239],"https://github.com/sysbio-curie/schubness.":[240],"SUPPLEMENTARY":[241],"INFORMATION:":[242],"Supplementary":[243],"at":[247],"Bioinformatics":[248],"online.":[249]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":1}],"updated_date":"2026-09-02T07:38:04.252551","created_date":"2025-10-10T00:00:00"}