{"id":"https://openalex.org/W3166636422","doi":"https://doi.org/10.1371/journal.pcbi.1009071","title":"CytoPy: An autonomous cytometry analysis framework","display_name":"CytoPy: An autonomous cytometry analysis framework","publication_year":2021,"publication_date":"2021-06-08","ids":{"openalex":"https://openalex.org/W3166636422","doi":"https://doi.org/10.1371/journal.pcbi.1009071","mag":"3166636422","pmid":"https://pubmed.ncbi.nlm.nih.gov/34101722"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1009071","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1009071","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1009071&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1009071&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5020285418","display_name":"Ross J. Burton","orcid":"https://orcid.org/0000-0002-1516-7749"},"institutions":[{"id":"https://openalex.org/I79510175","display_name":"Cardiff University","ror":"https://ror.org/03kk7td41","country_code":"GB","type":"education","lineage":["https://openalex.org/I79510175"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Ross J. Burton","raw_affiliation_strings":["Division of Infection and Immunity, School of Medicine, Cardiff University, Cardiff, United Kingdom"],"raw_orcid":"https://orcid.org/0000-0002-1516-7749","affiliations":[{"raw_affiliation_string":"Division of Infection and Immunity, School of Medicine, Cardiff University, Cardiff, United Kingdom","institution_ids":["https://openalex.org/I79510175"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5003389440","display_name":"Raya Ahmed","orcid":null},"institutions":[{"id":"https://openalex.org/I79510175","display_name":"Cardiff University","ror":"https://ror.org/03kk7td41","country_code":"GB","type":"education","lineage":["https://openalex.org/I79510175"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Raya Ahmed","raw_affiliation_strings":["Division of Infection and Immunity, School of Medicine, Cardiff University, Cardiff, United Kingdom"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Division of Infection and Immunity, School of Medicine, Cardiff University, Cardiff, United Kingdom","institution_ids":["https://openalex.org/I79510175"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5069835788","display_name":"Simone Cuff","orcid":"https://orcid.org/0000-0002-0546-3579"},"institutions":[{"id":"https://openalex.org/I79510175","display_name":"Cardiff University","ror":"https://ror.org/03kk7td41","country_code":"GB","type":"education","lineage":["https://openalex.org/I79510175"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Simone M. Cuff","raw_affiliation_strings":["Division of Infection and Immunity, School of Medicine, Cardiff University, Cardiff, United Kingdom"],"raw_orcid":"https://orcid.org/0000-0002-0546-3579","affiliations":[{"raw_affiliation_string":"Division of Infection and Immunity, School of Medicine, Cardiff University, Cardiff, United Kingdom","institution_ids":["https://openalex.org/I79510175"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Sarah Baker","orcid":"https://orcid.org/0000-0002-7474-9757"},"institutions":[{"id":"https://openalex.org/I79510175","display_name":"Cardiff University","ror":"https://ror.org/03kk7td41","country_code":"GB","type":"education","lineage":["https://openalex.org/I79510175"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Sarah Baker","raw_affiliation_strings":["Division of Infection and Immunity, School of Medicine, Cardiff University, Cardiff, United Kingdom"],"raw_orcid":"https://orcid.org/0000-0002-7474-9757","affiliations":[{"raw_affiliation_string":"Division of Infection and Immunity, School of Medicine, Cardiff University, Cardiff, United Kingdom","institution_ids":["https://openalex.org/I79510175"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5053753516","display_name":"Andreas Artemiou","orcid":"https://orcid.org/0000-0002-7501-4090"},"institutions":[{"id":"https://openalex.org/I79510175","display_name":"Cardiff University","ror":"https://ror.org/03kk7td41","country_code":"GB","type":"education","lineage":["https://openalex.org/I79510175"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Andreas Artemiou","raw_affiliation_strings":["School of Mathematics, Cardiff University, Cardiff, United Kingdom"],"raw_orcid":"https://orcid.org/0000-0002-7501-4090","affiliations":[{"raw_affiliation_string":"School of Mathematics, Cardiff University, Cardiff, United Kingdom","institution_ids":["https://openalex.org/I79510175"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5006981120","display_name":"Matthias Eberl","orcid":"https://orcid.org/0000-0002-9390-5348"},"institutions":[{"id":"https://openalex.org/I79510175","display_name":"Cardiff University","ror":"https://ror.org/03kk7td41","country_code":"GB","type":"education","lineage":["https://openalex.org/I79510175"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Matthias Eberl","raw_affiliation_strings":["Division of Infection and Immunity, School of Medicine, Cardiff University, Cardiff, United Kingdom","Systems Immunity Research Institute, Cardiff University, Cardiff, United Kingdom"],"raw_orcid":"https://orcid.org/0000-0002-9390-5348","affiliations":[{"raw_affiliation_string":"Division of Infection and Immunity, School of Medicine, Cardiff University, Cardiff, United Kingdom","institution_ids":["https://openalex.org/I79510175"]},{"raw_affiliation_string":"Systems Immunity Research Institute, Cardiff University, Cardiff, United Kingdom","institution_ids":["https://openalex.org/I79510175"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5020285418"],"corresponding_institution_ids":["https://openalex.org/I79510175"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":1.1102,"has_fulltext":true,"cited_by_count":19,"citation_normalized_percentile":{"value":0.76713707,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":95,"max":98},"biblio":{"volume":"17","issue":"6","first_page":"e1009071","last_page":"e1009071"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9998000264167786,"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":0.9998000264167786,"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":0.9926999807357788,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/python","display_name":"Python (programming language)","score":0.8174026012420654},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7324401140213013},{"id":"https://openalex.org/keywords/mit-license","display_name":"MIT License","score":0.6987876892089844},{"id":"https://openalex.org/keywords/mass-cytometry","display_name":"Mass cytometry","score":0.6964206695556641},{"id":"https://openalex.org/keywords/cytometry","display_name":"Cytometry","score":0.6411347389221191},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.513043999671936},{"id":"https://openalex.org/keywords/open-source","display_name":"Open source","score":0.49648672342300415},{"id":"https://openalex.org/keywords/replicate","display_name":"Replicate","score":0.44988539814949036},{"id":"https://openalex.org/keywords/r-package","display_name":"R package","score":0.4394548535346985},{"id":"https://openalex.org/keywords/documentation","display_name":"Documentation","score":0.4356532096862793},{"id":"https://openalex.org/keywords/flow-cytometry","display_name":"Flow cytometry","score":0.4316061735153198},{"id":"https://openalex.org/keywords/immunophenotyping","display_name":"Immunophenotyping","score":0.4101666808128357},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.20223909616470337},{"id":"https://openalex.org/keywords/phenotype","display_name":"Phenotype","score":0.15300965309143066},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.11513608694076538},{"id":"https://openalex.org/keywords/immunology","display_name":"Immunology","score":0.08826014399528503},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.08709865808486938},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.07902836799621582}],"concepts":[{"id":"https://openalex.org/C519991488","wikidata":"https://www.wikidata.org/wiki/Q28865","display_name":"Python (programming language)","level":2,"score":0.8174026012420654},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7324401140213013},{"id":"https://openalex.org/C174183944","wikidata":"https://www.wikidata.org/wiki/Q334661","display_name":"MIT License","level":3,"score":0.6987876892089844},{"id":"https://openalex.org/C2778015335","wikidata":"https://www.wikidata.org/wiki/Q17051163","display_name":"Mass cytometry","level":4,"score":0.6964206695556641},{"id":"https://openalex.org/C2780339063","wikidata":"https://www.wikidata.org/wiki/Q5201367","display_name":"Cytometry","level":3,"score":0.6411347389221191},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.513043999671936},{"id":"https://openalex.org/C3018397939","wikidata":"https://www.wikidata.org/wiki/Q3644502","display_name":"Open source","level":3,"score":0.49648672342300415},{"id":"https://openalex.org/C2781162219","wikidata":"https://www.wikidata.org/wiki/Q26250693","display_name":"Replicate","level":2,"score":0.44988539814949036},{"id":"https://openalex.org/C2984074130","wikidata":"https://www.wikidata.org/wiki/Q73539779","display_name":"R package","level":2,"score":0.4394548535346985},{"id":"https://openalex.org/C56666940","wikidata":"https://www.wikidata.org/wiki/Q788790","display_name":"Documentation","level":2,"score":0.4356532096862793},{"id":"https://openalex.org/C553184892","wikidata":"https://www.wikidata.org/wiki/Q1141429","display_name":"Flow cytometry","level":2,"score":0.4316061735153198},{"id":"https://openalex.org/C196166836","wikidata":"https://www.wikidata.org/wiki/Q902926","display_name":"Immunophenotyping","level":3,"score":0.4101666808128357},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.20223909616470337},{"id":"https://openalex.org/C127716648","wikidata":"https://www.wikidata.org/wiki/Q104053","display_name":"Phenotype","level":3,"score":0.15300965309143066},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.11513608694076538},{"id":"https://openalex.org/C203014093","wikidata":"https://www.wikidata.org/wiki/Q101929","display_name":"Immunology","level":1,"score":0.08826014399528503},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.08709865808486938},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.07902836799621582},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","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":"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":"D010530","descriptor_name":"Peritoneal Dialysis","qualifier_ui":"Q000009","qualifier_name":"adverse effects","is_major_topic":false},{"descriptor_ui":"D010530","descriptor_name":"Peritoneal Dialysis","qualifier_ui":"Q000009","qualifier_name":"adverse effects","is_major_topic":false},{"descriptor_ui":"D010530","descriptor_name":"Peritoneal Dialysis","qualifier_ui":"Q000009","qualifier_name":"adverse effects","is_major_topic":false},{"descriptor_ui":"D010530","descriptor_name":"Peritoneal Dialysis","qualifier_ui":"Q000009","qualifier_name":"adverse effects","is_major_topic":false},{"descriptor_ui":"D010538","descriptor_name":"Peritonitis","qualifier_ui":"Q000175","qualifier_name":"diagnosis","is_major_topic":false},{"descriptor_ui":"D010538","descriptor_name":"Peritonitis","qualifier_ui":"Q000175","qualifier_name":"diagnosis","is_major_topic":false},{"descriptor_ui":"D010538","descriptor_name":"Peritonitis","qualifier_ui":"Q000175","qualifier_name":"diagnosis","is_major_topic":false},{"descriptor_ui":"D010538","descriptor_name":"Peritonitis","qualifier_ui":"Q000175","qualifier_name":"diagnosis","is_major_topic":false},{"descriptor_ui":"D010538","descriptor_name":"Peritonitis","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D010538","descriptor_name":"Peritonitis","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D010538","descriptor_name":"Peritonitis","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D010538","descriptor_name":"Peritonitis","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D010538","descriptor_name":"Peritonitis","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D010538","descriptor_name":"Peritonitis","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D010538","descriptor_name":"Peritonitis","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D010538","descriptor_name":"Peritonitis","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":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":"D016130","descriptor_name":"Immunophenotyping","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":false},{"descriptor_ui":"D016130","descriptor_name":"Immunophenotyping","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":false},{"descriptor_ui":"D016130","descriptor_name":"Immunophenotyping","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":false},{"descriptor_ui":"D016130","descriptor_name":"Immunophenotyping","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":false},{"descriptor_ui":"D016176","descriptor_name":"T-Lymphocyte Subsets","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D016176","descriptor_name":"T-Lymphocyte Subsets","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D016176","descriptor_name":"T-Lymphocyte Subsets","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D016176","descriptor_name":"T-Lymphocyte Subsets","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D016176","descriptor_name":"T-Lymphocyte Subsets","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D016176","descriptor_name":"T-Lymphocyte Subsets","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D016176","descriptor_name":"T-Lymphocyte Subsets","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D016176","descriptor_name":"T-Lymphocyte Subsets","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019044","descriptor_name":"Image Cytometry","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":false},{"descriptor_ui":"D019044","descriptor_name":"Image Cytometry","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":false},{"descriptor_ui":"D019044","descriptor_name":"Image Cytometry","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":false},{"descriptor_ui":"D019044","descriptor_name":"Image Cytometry","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":6,"locations":[{"id":"doi:10.1371/journal.pcbi.1009071","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1009071","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1009071&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},{"id":"pmid:34101722","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34101722","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":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:https://orca.cardiff.ac.uk:141799","is_oa":false,"landing_page_url":null,"pdf_url":null,"source":{"id":"https://openalex.org/S4306401195","display_name":"ORCA Online Research @Cardiff (Cardiff University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I79510175","host_organization_name":"Cardiff University","host_organization_lineage":["https://openalex.org/I79510175"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":null,"raw_type":"Article"},{"id":"pmh:oai:RePEc:plo:pcbi00:1009071","is_oa":false,"landing_page_url":"https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1009071","pdf_url":null,"source":{"id":"https://openalex.org/S4306401271","display_name":"RePEc: Research Papers in Economics","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I77793887","host_organization_name":"Federal Reserve Bank of St. Louis","host_organization_lineage":["https://openalex.org/I77793887"],"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":"article"},{"id":"pmh:oai:doaj.org/article:f0baf2a6344c4c2892eac5cab14ee123","is_oa":false,"landing_page_url":"https://doaj.org/article/f0baf2a6344c4c2892eac5cab14ee123","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 17, Iss 6, p e1009071 (2021)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:8213167","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8213167","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Comput Biol","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1009071","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1009071","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1009071&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1611667604","display_name":"Innate pathogen sensing by local unconventional T cells during microbial infections","funder_award_id":"MR/N023145/1","funder_id":"https://openalex.org/F4320334626","funder_display_name":"Medical Research Council"},{"id":"https://openalex.org/G3019274806","display_name":null,"funder_award_id":"MR/N023145/1","funder_id":"https://openalex.org/F4320334626","funder_display_name":"Medical Research Council"},{"id":"https://openalex.org/G7559598962","display_name":null,"funder_award_id":"RP6/2014","funder_id":"https://openalex.org/F4320320008","funder_display_name":"Kidney Research UK"}],"funders":[{"id":"https://openalex.org/F4320320008","display_name":"Kidney Research UK","ror":"https://ror.org/02kx7se86"},{"id":"https://openalex.org/F4320334626","display_name":"Medical Research Council","ror":"https://ror.org/03x94j517"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3166636422.pdf","grobid_xml":"https://content.openalex.org/works/W3166636422.grobid-xml"},"referenced_works_count":42,"referenced_works":["https://openalex.org/W1539153878","https://openalex.org/W1631320694","https://openalex.org/W1980081406","https://openalex.org/W1992697645","https://openalex.org/W1993835819","https://openalex.org/W2047594345","https://openalex.org/W2073256527","https://openalex.org/W2087295215","https://openalex.org/W2099394719","https://openalex.org/W2101234009","https://openalex.org/W2157673856","https://openalex.org/W2181067433","https://openalex.org/W2295598076","https://openalex.org/W2321361127","https://openalex.org/W2342249984","https://openalex.org/W2358421111","https://openalex.org/W2498761000","https://openalex.org/W2522948376","https://openalex.org/W2568457675","https://openalex.org/W2585665652","https://openalex.org/W2597330433","https://openalex.org/W2612538354","https://openalex.org/W2618851150","https://openalex.org/W2761095749","https://openalex.org/W2788915007","https://openalex.org/W2889103878","https://openalex.org/W2902652978","https://openalex.org/W2944207955","https://openalex.org/W2950814274","https://openalex.org/W2953384591","https://openalex.org/W2962862931","https://openalex.org/W2967177832","https://openalex.org/W2978541146","https://openalex.org/W2984472267","https://openalex.org/W2993894543","https://openalex.org/W3002417351","https://openalex.org/W3003257820","https://openalex.org/W3049397729","https://openalex.org/W3102476541","https://openalex.org/W3103145119","https://openalex.org/W6675354045","https://openalex.org/W6713134421"],"related_works":["https://openalex.org/W2176701861","https://openalex.org/W4224000552","https://openalex.org/W1576959934","https://openalex.org/W2053129129","https://openalex.org/W4251194061","https://openalex.org/W2758463337","https://openalex.org/W2470680194","https://openalex.org/W2944792102","https://openalex.org/W3000152097","https://openalex.org/W4313381864"],"abstract_inverted_index":{"Cytometry":[0],"analysis":[1,93],"has":[2,31,74],"seen":[3],"a":[4,21,88,99,103,115],"considerable":[5],"expansion":[6],"in":[7,10,20,79,121,136,141,167],"recent":[8],"years":[9],"the":[11,54,80,122,127,142,163,181],"maximum":[12],"number":[13],"of":[14,56,71,82,94,129,144],"parameters":[15],"that":[16,97],"can":[17],"be":[18,77],"acquired":[19,47],"single":[22,44],"experiment.":[23],"In":[24,109],"response":[25],"to":[26,36,62,76,131,149,161],"this":[27,192],"technological":[28],"advance":[29],"there":[30],"been":[32],"an":[33],"increased":[34],"effort":[35],"develop":[37],"new":[38],"computational":[39],"methodologies":[40],"for":[41,91,102,117],"handling":[42],"high-dimensional":[43],"cell":[45,134],"data":[46,96],"by":[48],"flow":[49],"or":[50],"mass":[51],"cytometry.":[52],"Despite":[53],"success":[55],"numerous":[57],"algorithms":[58],"and":[59,64,105,151,170,178,195],"published":[60],"packages":[61],"replicate":[63],"outperform":[65],"traditional":[66],"manual":[67],"analysis,":[68],"widespread":[69],"adoption":[70],"these":[72],"techniques":[73],"yet":[75],"realised":[78],"field":[81],"immunology.":[83],"Here":[84],"we":[85],"present":[86],"CytoPy,":[87],"Python":[89,123],"framework":[90],"automated":[92],"cytometry":[95,119],"integrates":[98],"document-based":[100],"database":[101],"data-centric":[104],"iterative":[106],"analytical":[107,156],"environment.":[108],"addition,":[110],"our":[111],"algorithm-agnostic":[112],"design":[113],"provides":[114],"platform":[116],"open-source":[118,177],"bioinformatics":[120],"ecosystem.":[124],"We":[125],"demonstrate":[126],"ability":[128],"CytoPy":[130,175,184],"phenotype":[132],"T":[133],"subsets":[135],"whole":[137],"blood":[138],"samples":[139],"even":[140],"presence":[143],"significant":[145],"batch":[146],"effects":[147],"due":[148],"technical":[150],"user":[152],"variation.":[153],"The":[154],"complete":[155],"pipeline":[157],"was":[158],"then":[159],"used":[160],"immunophenotype":[162],"local":[164],"inflammatory":[165],"infiltrate":[166],"individuals":[168],"with":[169,189],"without":[171],"acute":[172],"bacterial":[173],"infection.":[174],"is":[176,185],"licensed":[179],"under":[180],"MIT":[182],"license.":[183],"available":[186],"at":[187,198],"https://github.com/burtonrj/CytoPy,":[188],"notebooks":[190],"accompanying":[191],"manuscript":[193],"(https://github.com/burtonrj/CytoPyManuscript)":[194],"software":[196],"documentation":[197],"https://cytopy.readthedocs.io/.":[199]},"counts_by_year":[{"year":2025,"cited_by_count":5},{"year":2024,"cited_by_count":4},{"year":2023,"cited_by_count":4},{"year":2022,"cited_by_count":3},{"year":2021,"cited_by_count":3}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}
