{"id":"https://openalex.org/W2806701851","doi":"https://doi.org/10.1093/bioinformatics/bty430","title":"GateFinder: projection-based gating strategy optimization for flow and mass cytometry","display_name":"GateFinder: projection-based gating strategy optimization for flow and mass cytometry","publication_year":2018,"publication_date":"2018-05-23","ids":{"openalex":"https://openalex.org/W2806701851","doi":"https://doi.org/10.1093/bioinformatics/bty430","mag":"2806701851","pmid":"https://pubmed.ncbi.nlm.nih.gov/29850785"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bty430","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty430","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://hdl.handle.net/2108/312261","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5031425035","display_name":"Nima Aghaeepour","orcid":"https://orcid.org/0000-0002-6117-8764"},"institutions":[{"id":"https://openalex.org/I4210087873","display_name":"Institute for Stem Cell Biology and Regenerative Medicine","ror":"https://ror.org/007wpch15","country_code":"IN","type":"facility","lineage":["https://openalex.org/I2799351866","https://openalex.org/I3141573830","https://openalex.org/I4210087873","https://openalex.org/I4210134808"]},{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]},{"id":"https://openalex.org/I99484792","display_name":"Baxter (United States)","ror":"https://ror.org/02d6ew870","country_code":"US","type":"company","lineage":["https://openalex.org/I99484792"]}],"countries":["IN","US"],"is_corresponding":false,"raw_author_name":"Nima Aghaeepour","raw_affiliation_strings":["Baxter Laboratory in Stem Cell Biology","Department of Anesthesiology, Stanford University, Stanford, CA, USA","Baxter Laboratory in Stem Cell Biology; Department of Anesthesiology, Stanford University, Stanford, CA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Baxter Laboratory in Stem Cell Biology","institution_ids":["https://openalex.org/I99484792","https://openalex.org/I4210087873"]},{"raw_affiliation_string":"Department of Anesthesiology, Stanford University, Stanford, CA, USA","institution_ids":["https://openalex.org/I97018004"]},{"raw_affiliation_string":"Baxter Laboratory in Stem Cell Biology; Department of Anesthesiology, Stanford University, Stanford, CA, USA","institution_ids":["https://openalex.org/I99484792","https://openalex.org/I97018004"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5082080696","display_name":"Erin F. Simonds","orcid":"https://orcid.org/0000-0002-3497-4861"},"institutions":[{"id":"https://openalex.org/I180670191","display_name":"University of California, San Francisco","ror":"https://ror.org/043mz5j54","country_code":"US","type":"education","lineage":["https://openalex.org/I180670191"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Erin F Simonds","raw_affiliation_strings":["Department of Neurology, University of California, San Francisco, CA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Neurology, University of California, San Francisco, CA, USA","institution_ids":["https://openalex.org/I180670191"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5050342389","display_name":"David J. H. F. Knapp","orcid":"https://orcid.org/0000-0002-2161-9959"},"institutions":[{"id":"https://openalex.org/I4210094500","display_name":"Terry Fox Research Institute","ror":"https://ror.org/00mtf6c40","country_code":"CA","type":"facility","lineage":["https://openalex.org/I4210094500"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"David J H F Knapp","raw_affiliation_strings":["Terry Fox Laboratory, British Columbia Cancer Research Center, Vancouver, BC, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Terry Fox Laboratory, British Columbia Cancer Research Center, Vancouver, BC, Canada","institution_ids":["https://openalex.org/I4210094500"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5089543524","display_name":"Robert V. Bruggner","orcid":null},"institutions":[{"id":"https://openalex.org/I4210087873","display_name":"Institute for Stem Cell Biology and Regenerative Medicine","ror":"https://ror.org/007wpch15","country_code":"IN","type":"facility","lineage":["https://openalex.org/I2799351866","https://openalex.org/I3141573830","https://openalex.org/I4210087873","https://openalex.org/I4210134808"]},{"id":"https://openalex.org/I99484792","display_name":"Baxter (United States)","ror":"https://ror.org/02d6ew870","country_code":"US","type":"company","lineage":["https://openalex.org/I99484792"]}],"countries":["IN","US"],"is_corresponding":false,"raw_author_name":"Robert V Bruggner","raw_affiliation_strings":["Baxter Laboratory in Stem Cell Biology"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Baxter Laboratory in Stem Cell Biology","institution_ids":["https://openalex.org/I99484792","https://openalex.org/I4210087873"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5112171922","display_name":"Karen Sachs","orcid":null},"institutions":[{"id":"https://openalex.org/I4210087873","display_name":"Institute for Stem Cell Biology and Regenerative Medicine","ror":"https://ror.org/007wpch15","country_code":"IN","type":"facility","lineage":["https://openalex.org/I2799351866","https://openalex.org/I3141573830","https://openalex.org/I4210087873","https://openalex.org/I4210134808"]},{"id":"https://openalex.org/I99484792","display_name":"Baxter (United States)","ror":"https://ror.org/02d6ew870","country_code":"US","type":"company","lineage":["https://openalex.org/I99484792"]}],"countries":["IN","US"],"is_corresponding":false,"raw_author_name":"Karen Sachs","raw_affiliation_strings":["Baxter Laboratory in Stem Cell Biology"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Baxter Laboratory in Stem Cell Biology","institution_ids":["https://openalex.org/I99484792","https://openalex.org/I4210087873"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040026900","display_name":"Anthony Culos","orcid":"https://orcid.org/0000-0003-0083-6994"},"institutions":[{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Anthony Culos","raw_affiliation_strings":["Department of Anesthesiology, Stanford University, Stanford, CA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Anesthesiology, Stanford University, Stanford, CA, USA","institution_ids":["https://openalex.org/I97018004"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5052205775","display_name":"Pier Federico Gherardini","orcid":"https://orcid.org/0000-0002-9030-2154"},"institutions":[{"id":"https://openalex.org/I4210087873","display_name":"Institute for Stem Cell Biology and Regenerative Medicine","ror":"https://ror.org/007wpch15","country_code":"IN","type":"facility","lineage":["https://openalex.org/I2799351866","https://openalex.org/I3141573830","https://openalex.org/I4210087873","https://openalex.org/I4210134808"]},{"id":"https://openalex.org/I99484792","display_name":"Baxter (United States)","ror":"https://ror.org/02d6ew870","country_code":"US","type":"company","lineage":["https://openalex.org/I99484792"]}],"countries":["IN","US"],"is_corresponding":false,"raw_author_name":"Pier Federico Gherardini","raw_affiliation_strings":["Baxter Laboratory in Stem Cell Biology"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Baxter Laboratory in Stem Cell Biology","institution_ids":["https://openalex.org/I99484792","https://openalex.org/I4210087873"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073642924","display_name":"Nikolay Samusik","orcid":"https://orcid.org/0000-0002-3559-1010"},"institutions":[{"id":"https://openalex.org/I4210087873","display_name":"Institute for Stem Cell Biology and Regenerative Medicine","ror":"https://ror.org/007wpch15","country_code":"IN","type":"facility","lineage":["https://openalex.org/I2799351866","https://openalex.org/I3141573830","https://openalex.org/I4210087873","https://openalex.org/I4210134808"]},{"id":"https://openalex.org/I99484792","display_name":"Baxter (United States)","ror":"https://ror.org/02d6ew870","country_code":"US","type":"company","lineage":["https://openalex.org/I99484792"]}],"countries":["IN","US"],"is_corresponding":false,"raw_author_name":"Nikolay Samusik","raw_affiliation_strings":["Baxter Laboratory in Stem Cell Biology"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Baxter Laboratory in Stem Cell Biology","institution_ids":["https://openalex.org/I99484792","https://openalex.org/I4210087873"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5087928119","display_name":"Gabriela K. Fragiadakis","orcid":"https://orcid.org/0000-0001-9703-2591"},"institutions":[{"id":"https://openalex.org/I4210087873","display_name":"Institute for Stem Cell Biology and Regenerative Medicine","ror":"https://ror.org/007wpch15","country_code":"IN","type":"facility","lineage":["https://openalex.org/I2799351866","https://openalex.org/I3141573830","https://openalex.org/I4210087873","https://openalex.org/I4210134808"]},{"id":"https://openalex.org/I99484792","display_name":"Baxter (United States)","ror":"https://ror.org/02d6ew870","country_code":"US","type":"company","lineage":["https://openalex.org/I99484792"]}],"countries":["IN","US"],"is_corresponding":false,"raw_author_name":"Gabriela K Fragiadakis","raw_affiliation_strings":["Baxter Laboratory in Stem Cell Biology"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Baxter Laboratory in Stem Cell Biology","institution_ids":["https://openalex.org/I99484792","https://openalex.org/I4210087873"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5045383208","display_name":"Sean C. Bendall","orcid":"https://orcid.org/0000-0003-1341-2453"},"institutions":[{"id":"https://openalex.org/I4210087873","display_name":"Institute for Stem Cell Biology and Regenerative Medicine","ror":"https://ror.org/007wpch15","country_code":"IN","type":"facility","lineage":["https://openalex.org/I2799351866","https://openalex.org/I3141573830","https://openalex.org/I4210087873","https://openalex.org/I4210134808"]},{"id":"https://openalex.org/I99484792","display_name":"Baxter (United States)","ror":"https://ror.org/02d6ew870","country_code":"US","type":"company","lineage":["https://openalex.org/I99484792"]}],"countries":["IN","US"],"is_corresponding":false,"raw_author_name":"Sean C Bendall","raw_affiliation_strings":["Baxter Laboratory in Stem Cell Biology","Department of Pathology","Baxter Laboratory in Stem Cell Biology; Department of Pathology"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Baxter Laboratory in Stem Cell Biology","institution_ids":["https://openalex.org/I99484792","https://openalex.org/I4210087873"]},{"raw_affiliation_string":"Department of Pathology","institution_ids":[]},{"raw_affiliation_string":"Baxter Laboratory in Stem Cell Biology; Department of Pathology","institution_ids":["https://openalex.org/I99484792","https://openalex.org/I4210087873"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5034034727","display_name":"Brice Gaudilli\u00e8re","orcid":"https://orcid.org/0000-0002-3475-5706"},"institutions":[{"id":"https://openalex.org/I4210087873","display_name":"Institute for Stem Cell Biology and Regenerative Medicine","ror":"https://ror.org/007wpch15","country_code":"IN","type":"facility","lineage":["https://openalex.org/I2799351866","https://openalex.org/I3141573830","https://openalex.org/I4210087873","https://openalex.org/I4210134808"]},{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]},{"id":"https://openalex.org/I99484792","display_name":"Baxter (United States)","ror":"https://ror.org/02d6ew870","country_code":"US","type":"company","lineage":["https://openalex.org/I99484792"]}],"countries":["IN","US"],"is_corresponding":false,"raw_author_name":"Brice Gaudilliere","raw_affiliation_strings":["Baxter Laboratory in Stem Cell Biology","Department of Anesthesiology, Stanford University, Stanford, CA, USA","Baxter Laboratory in Stem Cell Biology; Department of Anesthesiology, Stanford University, Stanford, CA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Baxter Laboratory in Stem Cell Biology","institution_ids":["https://openalex.org/I99484792","https://openalex.org/I4210087873"]},{"raw_affiliation_string":"Department of Anesthesiology, Stanford University, Stanford, CA, USA","institution_ids":["https://openalex.org/I97018004"]},{"raw_affiliation_string":"Baxter Laboratory in Stem Cell Biology; Department of Anesthesiology, Stanford University, Stanford, CA, USA","institution_ids":["https://openalex.org/I99484792","https://openalex.org/I97018004"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5015880330","display_name":"Martin S. Angst","orcid":"https://orcid.org/0000-0002-1550-8136"},"institutions":[{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Martin S Angst","raw_affiliation_strings":["Department of Anesthesiology, Stanford University, Stanford, CA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Anesthesiology, Stanford University, Stanford, CA, USA","institution_ids":["https://openalex.org/I97018004"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5009814106","display_name":"Connie J. Eaves","orcid":"https://orcid.org/0000-0002-3452-1926"},"institutions":[{"id":"https://openalex.org/I4210094500","display_name":"Terry Fox Research Institute","ror":"https://ror.org/00mtf6c40","country_code":"CA","type":"facility","lineage":["https://openalex.org/I4210094500"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Connie J Eaves","raw_affiliation_strings":["Terry Fox Laboratory, British Columbia Cancer Research Center, Vancouver, BC, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Terry Fox Laboratory, British Columbia Cancer Research Center, Vancouver, BC, Canada","institution_ids":["https://openalex.org/I4210094500"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073603294","display_name":"William A. Weiss","orcid":"https://orcid.org/0000-0003-2230-9132"},"institutions":[{"id":"https://openalex.org/I180670191","display_name":"University of California, San Francisco","ror":"https://ror.org/043mz5j54","country_code":"US","type":"education","lineage":["https://openalex.org/I180670191"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"William A Weiss","raw_affiliation_strings":["Department of Neurology, University of California, San Francisco, CA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Neurology, University of California, San Francisco, CA, USA","institution_ids":["https://openalex.org/I180670191"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071972147","display_name":"Wendy J. Fantl","orcid":"https://orcid.org/0000-0003-3452-7292"},"institutions":[{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Wendy J Fantl","raw_affiliation_strings":["Department of Obstetrics and Gynecology, Stanford University, Stanford, CA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Obstetrics and Gynecology, Stanford University, Stanford, CA, USA","institution_ids":["https://openalex.org/I97018004"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5033995613","display_name":"Garry P. Nolan","orcid":"https://orcid.org/0000-0002-8862-9043"},"institutions":[{"id":"https://openalex.org/I4210087873","display_name":"Institute for Stem Cell Biology and Regenerative Medicine","ror":"https://ror.org/007wpch15","country_code":"IN","type":"facility","lineage":["https://openalex.org/I2799351866","https://openalex.org/I3141573830","https://openalex.org/I4210087873","https://openalex.org/I4210134808"]},{"id":"https://openalex.org/I99484792","display_name":"Baxter (United States)","ror":"https://ror.org/02d6ew870","country_code":"US","type":"company","lineage":["https://openalex.org/I99484792"]}],"countries":["IN","US"],"is_corresponding":true,"raw_author_name":"Garry P Nolan","raw_affiliation_strings":["Baxter Laboratory in Stem Cell Biology"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Baxter Laboratory in Stem Cell Biology","institution_ids":["https://openalex.org/I99484792","https://openalex.org/I4210087873"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":16,"corresponding_author_ids":["https://openalex.org/A5033995613"],"corresponding_institution_ids":["https://openalex.org/I4210087873","https://openalex.org/I99484792"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":2.1341,"has_fulltext":false,"cited_by_count":26,"citation_normalized_percentile":{"value":0.88038977,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"34","issue":"23","first_page":"4131","last_page":"4133"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.992900013923645,"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":0.992900013923645,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T12859","display_name":"Cell Image Analysis Techniques","score":0.004000000189989805,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11255","display_name":"Microfluidic and Bio-sensing Technologies","score":0.0010000000474974513,"subfield":{"id":"https://openalex.org/subfields/2204","display_name":"Biomedical Engineering"},"field":{"id":"https://openalex.org/fields/22","display_name":"Engineering"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/bioconductor","display_name":"Bioconductor","score":0.9573018550872803},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7508889436721802},{"id":"https://openalex.org/keywords/mass-cytometry","display_name":"Mass cytometry","score":0.6705370545387268},{"id":"https://openalex.org/keywords/r-package","display_name":"R package","score":0.6037602424621582},{"id":"https://openalex.org/keywords/projection","display_name":"Projection (relational algebra)","score":0.4855599105358124},{"id":"https://openalex.org/keywords/simple","display_name":"Simple (philosophy)","score":0.4479146897792816},{"id":"https://openalex.org/keywords/polygon","display_name":"Polygon (computer graphics)","score":0.44484174251556396},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.44188326597213745},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.39238983392715454},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.35298943519592285},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.33552664518356323},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.17942845821380615},{"id":"https://openalex.org/keywords/computational-science","display_name":"Computational science","score":0.1609761118888855}],"concepts":[{"id":"https://openalex.org/C2779694297","wikidata":"https://www.wikidata.org/wiki/Q2888953","display_name":"Bioconductor","level":3,"score":0.9573018550872803},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7508889436721802},{"id":"https://openalex.org/C2778015335","wikidata":"https://www.wikidata.org/wiki/Q17051163","display_name":"Mass cytometry","level":4,"score":0.6705370545387268},{"id":"https://openalex.org/C2984074130","wikidata":"https://www.wikidata.org/wiki/Q73539779","display_name":"R package","level":2,"score":0.6037602424621582},{"id":"https://openalex.org/C57493831","wikidata":"https://www.wikidata.org/wiki/Q3134666","display_name":"Projection (relational algebra)","level":2,"score":0.4855599105358124},{"id":"https://openalex.org/C2780586882","wikidata":"https://www.wikidata.org/wiki/Q7520643","display_name":"Simple (philosophy)","level":2,"score":0.4479146897792816},{"id":"https://openalex.org/C190694206","wikidata":"https://www.wikidata.org/wiki/Q3276654","display_name":"Polygon (computer graphics)","level":3,"score":0.44484174251556396},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.44188326597213745},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.39238983392715454},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.35298943519592285},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.33552664518356323},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.17942845821380615},{"id":"https://openalex.org/C459310","wikidata":"https://www.wikidata.org/wiki/Q117801","display_name":"Computational science","level":1,"score":0.1609761118888855},{"id":"https://openalex.org/C76155785","wikidata":"https://www.wikidata.org/wiki/Q418","display_name":"Telecommunications","level":1,"score":0.0},{"id":"https://openalex.org/C126042441","wikidata":"https://www.wikidata.org/wiki/Q1324888","display_name":"Frame (networking)","level":2,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0},{"id":"https://openalex.org/C127716648","wikidata":"https://www.wikidata.org/wiki/Q104053","display_name":"Phenotype","level":3,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0}],"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":"D005434","descriptor_name":"Flow Cytometry","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005434","descriptor_name":"Flow Cytometry","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005434","descriptor_name":"Flow Cytometry","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015415","descriptor_name":"Biomarkers","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D015415","descriptor_name":"Biomarkers","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D015415","descriptor_name":"Biomarkers","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1093/bioinformatics/bty430","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty430","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:29850785","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/29850785","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":null},{"id":"pmh:oai:art.torvergata.it:2108/312261","is_oa":true,"landing_page_url":"https://hdl.handle.net/2108/312261","pdf_url":null,"source":{"id":"https://openalex.org/S4306400993","display_name":"Cineca Institutional Research Information System (Tor Vergata University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I116067653","host_organization_name":"University of Rome Tor Vergata","host_organization_lineage":["https://openalex.org/I116067653"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:escholarship.org:ark:/13030/qt6998k882","is_oa":false,"landing_page_url":"https://escholarship.org/uc/item/6998k882","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics, vol 34, iss 23","raw_type":"article"},{"id":"pmh:oai:europepmc.org:5839776","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6247943","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"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":"Text"}],"best_oa_location":{"id":"pmh:oai:art.torvergata.it:2108/312261","is_oa":true,"landing_page_url":"https://hdl.handle.net/2108/312261","pdf_url":null,"source":{"id":"https://openalex.org/S4306400993","display_name":"Cineca Institutional Research Information System (Tor Vergata University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I116067653","host_organization_name":"University of Rome Tor Vergata","host_organization_lineage":["https://openalex.org/I116067653"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"info:eu-repo/semantics/article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1290846377","display_name":null,"funder_award_id":"OCRF 292495","funder_id":"https://openalex.org/F4320334506","funder_display_name":"Canadian Institutes of Health Research"},{"id":"https://openalex.org/G1353453507","display_name":null,"funder_award_id":"0158GKB065","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G1406188611","display_name":null,"funder_award_id":"HEALTH.2010.1.2-1","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G1586610190","display_name":null,"funder_award_id":"HHSF223201210194C","funder_id":"https://openalex.org/F4320332163","funder_display_name":"U.S. Food and Drug Administration"},{"id":"https://openalex.org/G1744694213","display_name":null,"funder_award_id":"U19 AI057229","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G2950387133","display_name":null,"funder_award_id":"RFA CA 09-009","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G3020859529","display_name":null,"funder_award_id":"5-24927","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G339622879","display_name":null,"funder_award_id":"AI057229","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G3437849365","display_name":null,"funder_award_id":"5U54CA143907","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G3546235496","display_name":null,"funder_award_id":"N01-HV-00242","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G4051295036","display_name":null,"funder_award_id":"RB2-01592","funder_id":"https://openalex.org/F4320306171","funder_display_name":"California Institute for Regenerative Medicine"},{"id":"https://openalex.org/G4726716455","display_name":null,"funder_award_id":"PN2EY018228","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G4855938851","display_name":null,"funder_award_id":"CIHR 321510","funder_id":"https://openalex.org/F4320334506","funder_display_name":"Canadian Institutes of Health Research"},{"id":"https://openalex.org/G5164340766","display_name":null,"funder_award_id":"BAA-12-00118","funder_id":"https://openalex.org/F4320332163","funder_display_name":"U.S. Food and Drug Administration"},{"id":"https://openalex.org/G519574525","display_name":null,"funder_award_id":"1R33CA183692-01","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G5249726911","display_name":null,"funder_award_id":"P01 CA034233","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G6649136335","display_name":null,"funder_award_id":"1R01CA130826","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7063900871","display_name":null,"funder_award_id":"HHSN272200700038C","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7208824799","display_name":null,"funder_award_id":"U54CA149145","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7398253753","display_name":null,"funder_award_id":"RFA CA 09-011","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7422177992","display_name":null,"funder_award_id":"HHSF223201210194C","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G8147344168","display_name":null,"funder_award_id":"P01 CA034233-22A1","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G8210958864","display_name":null,"funder_award_id":"RB2-01592","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G8227483363","display_name":null,"funder_award_id":"DR1-01477","funder_id":"https://openalex.org/F4320334506","funder_display_name":"Canadian Institutes of Health Research"},{"id":"https://openalex.org/G832129709","display_name":null,"funder_award_id":"41000411217","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G8405231780","display_name":null,"funder_award_id":"T32GM007276","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G8545051820","display_name":null,"funder_award_id":"OCRF 292495","funder_id":"https://openalex.org/F4320306465","funder_display_name":"Ovarian Cancer Research Fund"},{"id":"https://openalex.org/G952143620","display_name":null,"funder_award_id":"DR1-01477","funder_id":"https://openalex.org/F4320306171","funder_display_name":"California Institute for Regenerative Medicine"}],"funders":[{"id":"https://openalex.org/F4320306171","display_name":"California Institute for Regenerative Medicine","ror":"https://ror.org/033m8b439"},{"id":"https://openalex.org/F4320306182","display_name":"March of Dimes Foundation","ror":"https://ror.org/04bd5p711"},{"id":"https://openalex.org/F4320306271","display_name":"Damon Runyon Cancer Research Foundation","ror":"https://ror.org/01gd7b947"},{"id":"https://openalex.org/F4320306465","display_name":"Ovarian Cancer Research Fund","ror":"https://ror.org/05hg41718"},{"id":"https://openalex.org/F4320308507","display_name":"Stanford University","ror":"https://ror.org/00f54p054"},{"id":"https://openalex.org/F4320309149","display_name":"Entertainment Industry Foundation","ror":"https://ror.org/01dmpb598"},{"id":"https://openalex.org/F4320310351","display_name":"Cure Starts Now Foundation","ror":"https://ror.org/04edq9h05"},{"id":"https://openalex.org/F4320318502","display_name":"International Society for Advancement of Cytometry","ror":null},{"id":"https://openalex.org/F4320320300","display_name":"European Commission","ror":"https://ror.org/00k4n6c32"},{"id":"https://openalex.org/F4320321386","display_name":"Terry Fox Foundation","ror":"https://ror.org/05vd00053"},{"id":"https://openalex.org/F4320331828","display_name":"Hamilton Health Sciences Foundation","ror":null},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320332163","display_name":"U.S. Food and Drug Administration","ror":"https://ror.org/034xvzb47"},{"id":"https://openalex.org/F4320333063","display_name":"Stanford Bio-X","ror":"https://ror.org/00f54p054"},{"id":"https://openalex.org/F4320334506","display_name":"Canadian Institutes of Health Research","ror":"https://ror.org/01gavpb45"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":7,"referenced_works":["https://openalex.org/W1622378427","https://openalex.org/W2156364173","https://openalex.org/W2181067433","https://openalex.org/W2461073387","https://openalex.org/W2461331156","https://openalex.org/W2780517934","https://openalex.org/W2951566836"],"related_works":["https://openalex.org/W2522948376","https://openalex.org/W2886484539","https://openalex.org/W2982252354","https://openalex.org/W2889103878","https://openalex.org/W2612538354","https://openalex.org/W2728564446","https://openalex.org/W3045904767","https://openalex.org/W2161868542","https://openalex.org/W3156537409","https://openalex.org/W2140163842"],"abstract_inverted_index":{"Motivation:":[0],"High-parameter":[1],"single-cell":[2],"technologies":[3],"can":[4,60],"reveal":[5,65],"novel":[6,66],"cell":[7,32,53],"populations":[8,16],"of":[9,48,51],"interest,":[10],"but":[11],"studying":[12],"or":[13],"validating":[14],"these":[15],"using":[17],"lower-parameter":[18],"methods":[19],"remains":[20],"challenging.":[21],"Results:":[22],"Here,":[23],"we":[24],"present":[25],"GateFinder,":[26],"an":[27],"algorithm":[28,77],"that":[29],"enriches":[30],"high-dimensional":[31],"types":[33,54],"with":[34],"simple,":[35],"stepwise":[36],"polygon":[37],"gates":[38],"requiring":[39],"only":[40],"two":[41],"markers":[42],"at":[43,95],"a":[44,81],"time.":[45],"A":[46],"series":[47],"case":[49],"studies":[50],"complex":[52],"illustrates":[55],"how":[56],"simplified":[57],"enrichment":[58],"strategies":[59],"enable":[61],"more":[62],"efficient":[63],"assays,":[64],"biomarkers":[67],"and":[68,73,83],"clarify":[69],"underlying":[70],"biology.":[71],"Availability":[72],"implementation:":[74],"The":[75],"GateFinder":[76],"is":[78],"implemented":[79],"as":[80],"free":[82],"open-source":[84],"package":[85],"for":[86],"BioConductor:":[87],"https://nalab.stanford.edu/gatefinder.":[88],"Supplementary":[89,91],"information:":[90],"data":[92],"are":[93],"available":[94],"Bioinformatics":[96],"online.":[97]},"counts_by_year":[{"year":2025,"cited_by_count":3},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":12},{"year":2020,"cited_by_count":3},{"year":2019,"cited_by_count":5},{"year":2018,"cited_by_count":1}],"updated_date":"2026-06-18T08:10:14.011955","created_date":"2025-10-10T00:00:00"}