{"id":"https://openalex.org/W7136908064","doi":"https://doi.org/10.6084/m9.figshare.4441865","title":"Additional file 6: Figure S3. of Classification of low quality cells from single-cell RNA-seq data","display_name":"Additional file 6: Figure S3. of Classification of low quality cells from single-cell RNA-seq data","publication_year":2016,"publication_date":"2016-01-01","ids":{"openalex":"https://openalex.org/W7136908064","doi":"https://doi.org/10.6084/m9.figshare.4441865"},"language":"en","primary_location":{"id":"doi:10.6084/m9.figshare.4441865","doi":"https://doi.org/10.6084/m9.figshare.4441865","is_oa":true,"landing_page_url":"https://doi.org/10.6084/m9.figshare.4441865","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"JournalArticle"},"volume":null,"type":"article","indexed_in":["datacite"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://doi.org/10.6084/m9.figshare.4441865","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5073073132","display_name":"Tomislav Ilicic","orcid":null,"observed_orcids":[]},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Ilicic, Tomislav","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5129424664","display_name":"Jong Soo Kim","orcid":null,"observed_orcids":[]},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Kim, Jong","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5009751716","display_name":"Aleksandra A. Kolodziejczyk","orcid":"https://orcid.org/0000-0002-2903-8884","observed_orcids":["https://orcid.org/0000-0002-2903-8884"]},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Kolodziejczyk, Aleksandra","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5003049632","display_name":"Frederik Otzen Bagger","orcid":"https://orcid.org/0000-0003-0636-8845","observed_orcids":["https://orcid.org/0000-0003-0636-8845"]},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Bagger, Frederik","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5034469657","display_name":"Davis James McCarthy","orcid":"https://orcid.org/0000-0002-2218-6833","observed_orcids":["https://orcid.org/0000-0002-2218-6833"]},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"McCarthy, Davis","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5042376614","display_name":"John C. Marioni","orcid":"https://orcid.org/0000-0001-9092-0852","observed_orcids":["https://orcid.org/0000-0001-9092-0852"]},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Marioni, John","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"last","author":{"id":"https://openalex.org/A5028596003","display_name":"Sarah Amalia Teichmann","orcid":"https://orcid.org/0000-0002-6294-6366","observed_orcids":["https://orcid.org/0000-0002-6294-6366"]},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Teichmann, Sarah","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]}],"institutions":[],"countries_distinct_count":0,"institutions_distinct_count":0,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.57913742,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"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":0.9994999766349792,"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":0.9994999766349792,"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":0.00019999999494757503,"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/T10015","display_name":"Genomics and Phylogenetic Studies","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/single-cell-rna-sequencing","display_name":"single-cell RNA sequencing","score":0.9049999713897705},{"id":"https://openalex.org/keywords/quality-control","display_name":"quality control","score":0.5580000281333923},{"id":"https://openalex.org/keywords/outlier-detection","display_name":"outlier detection","score":0.9649999737739563},{"id":"https://openalex.org/keywords/support-vector-machine","display_name":"support vector machine","score":0.8560000061988831},{"id":"https://openalex.org/keywords/nested-cross-validation","display_name":"nested cross-validation","score":0.9760000109672546},{"id":"https://openalex.org/keywords/hyperparameter-optimization","display_name":"hyperparameter optimization","score":0.796999990940094},{"id":"https://openalex.org/keywords/sensitivity-and-specificity","display_name":"sensitivity and specificity","score":0.9330000281333923}],"concepts":[{"id":"https://openalex.org/C12267149","wikidata":"https://www.wikidata.org/wiki/Q282453","display_name":"Support vector machine","level":2,"score":0.6978999972343445},{"id":"https://openalex.org/C79337645","wikidata":"https://www.wikidata.org/wiki/Q779824","display_name":"Outlier","level":2,"score":0.6295999884605408},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.6205000281333923},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6007999777793884},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.5993000268936157},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.510200023651123},{"id":"https://openalex.org/C58489278","wikidata":"https://www.wikidata.org/wiki/Q1172284","display_name":"Data set","level":2,"score":0.48350000381469727},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.47440001368522644},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.460999995470047},{"id":"https://openalex.org/C51632099","wikidata":"https://www.wikidata.org/wiki/Q3985153","display_name":"Training set","level":2,"score":0.44909998774528503},{"id":"https://openalex.org/C8642999","wikidata":"https://www.wikidata.org/wiki/Q4171168","display_name":"Hyperparameter","level":2,"score":0.40070000290870667},{"id":"https://openalex.org/C192328126","wikidata":"https://www.wikidata.org/wiki/Q4514647","display_name":"Schematic","level":2,"score":0.3961000144481659},{"id":"https://openalex.org/C2780009758","wikidata":"https://www.wikidata.org/wiki/Q6804172","display_name":"Measure (data warehouse)","level":2,"score":0.38999998569488525},{"id":"https://openalex.org/C21200559","wikidata":"https://www.wikidata.org/wiki/Q7451068","display_name":"Sensitivity (control systems)","level":2,"score":0.38580000400543213},{"id":"https://openalex.org/C172367668","wikidata":"https://www.wikidata.org/wiki/Q6504956","display_name":"Data visualization","level":3,"score":0.3799000084400177},{"id":"https://openalex.org/C27438332","wikidata":"https://www.wikidata.org/wiki/Q2873","display_name":"Principal component analysis","level":2,"score":0.376800000667572},{"id":"https://openalex.org/C2779530757","wikidata":"https://www.wikidata.org/wiki/Q1207505","display_name":"Quality (philosophy)","level":2,"score":0.32670000195503235},{"id":"https://openalex.org/C739882","wikidata":"https://www.wikidata.org/wiki/Q3560506","display_name":"Anomaly detection","level":2,"score":0.3021000027656555},{"id":"https://openalex.org/C52622490","wikidata":"https://www.wikidata.org/wiki/Q1026626","display_name":"Feature extraction","level":2,"score":0.26350000500679016},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.25110000371932983}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.6084/m9.figshare.4441865","doi":"https://doi.org/10.6084/m9.figshare.4441865","is_oa":true,"landing_page_url":"https://doi.org/10.6084/m9.figshare.4441865","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"JournalArticle"},{"id":"doi:10.6084/m9.figshare.4441865.v1","doi":"https://doi.org/10.6084/m9.figshare.4441865.v1","is_oa":true,"landing_page_url":"https://doi.org/10.6084/m9.figshare.4441865.v1","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"JournalArticle"}],"best_oa_location":{"id":"doi:10.6084/m9.figshare.4441865","doi":"https://doi.org/10.6084/m9.figshare.4441865","is_oa":true,"landing_page_url":"https://doi.org/10.6084/m9.figshare.4441865","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"JournalArticle"},"sustainable_development_goals":[{"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3","score":0.504800021648407}],"study_designs":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":0,"referenced_works":[],"related_works":["https://openalex.org/W2286142055","https://openalex.org/W6921009404","https://openalex.org/W2965592867","https://openalex.org/W3194691931","https://openalex.org/W7136280348","https://openalex.org/W6902282672","https://openalex.org/W6891706261","https://openalex.org/W2553077886","https://openalex.org/W3138098988","https://openalex.org/W4200428700"],"abstract_inverted_index":{"Post-QC":[0],"outliers":[1],"and":[2,10,19,65,70],"SVM":[3,71],"performance":[4],"evaluation.":[5],"(A)":[6],"Visualization":[7],"of":[8,27,67],"low":[9],"high":[11],"quality":[12],"cells":[13],"after":[14],"outlier":[15],"detection":[16],"with":[17,20],"traditional":[18],"our":[21],"PCA":[22,69],"feature-based":[23,68],"methods":[24],"(B)":[25],"Schematic":[26],"nested":[28],"cross-validation.":[29],"The":[30,39],"training":[31],"set":[32],"was":[33],"split":[34],"twice":[35],"into":[36],"10":[37],"folds.":[38],"inner":[40],"folds":[41,51],"were":[42,58],"important":[43],"to":[44,53],"estimate":[45],"optimal":[46],"hyperparameters,":[47],"whereas":[48],"the":[49],"outer":[50],"served":[52],"measure":[54],"accuracy.":[55],"Optimal":[56],"hyperparameters":[57],"saved":[59],"for":[60],"later":[61],"use.":[62],"(C)":[63],"Sensitivity":[64],"specificity":[66],"using":[72],"TPM":[73],"values.":[74],"(PDF":[75],"558":[76],"kb)":[77]},"counts_by_year":[],"updated_date":"2026-10-28T10:33:24.094632","created_date":"2026-03-17T00:00:00"}