{"id":"https://openalex.org/W4405231023","doi":"https://doi.org/10.1093/bib/bbae633","title":"Comprehensive evaluation and practical guideline of gating methods for high-dimensional cytometry data: manual gating, unsupervised clustering, and auto-gating","display_name":"Comprehensive evaluation and practical guideline of gating methods for high-dimensional cytometry data: manual gating, unsupervised clustering, and auto-gating","publication_year":2024,"publication_date":"2024-11-22","ids":{"openalex":"https://openalex.org/W4405231023","doi":"https://doi.org/10.1093/bib/bbae633","pmid":"https://pubmed.ncbi.nlm.nih.gov/39656848"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbae633","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbae633","pdf_url":"https://academic.oup.com/bib/article-pdf/26/1/bbae633/60949869/bbae633.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":true,"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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/bib/article-pdf/26/1/bbae633/60949869/bbae633.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100346741","display_name":"Peng Liu","orcid":"https://orcid.org/0000-0001-5655-2259"},"institutions":[{"id":"https://openalex.org/I170201317","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305","country_code":"US","type":"education","lineage":["https://openalex.org/I170201317"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Peng Liu","raw_affiliation_strings":["Department of Biostatistics, School of Public Health, University of Pittsburgh , 130 De Soto St., Pittsburgh, PA 15261 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biostatistics, School of Public Health, University of Pittsburgh , 130 De Soto St., Pittsburgh, PA 15261 ,","institution_ids":["https://openalex.org/I170201317"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102020500","display_name":"Yuchen Pan","orcid":"https://orcid.org/0000-0002-1780-764X"},"institutions":[{"id":"https://openalex.org/I1343551460","display_name":"The University of Texas MD Anderson Cancer Center","ror":"https://ror.org/04twxam07","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1343551460"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yuchen Pan","raw_affiliation_strings":["Department of Bioinformatics and Computational Biology, University of Texas MD Anderson Cancer Center , 1400 Pressler St., Houston, TX 77030 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Bioinformatics and Computational Biology, University of Texas MD Anderson Cancer Center , 1400 Pressler St., Houston, TX 77030 ,","institution_ids":["https://openalex.org/I1343551460"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068460300","display_name":"Hung\u2010Ching Chang","orcid":"https://orcid.org/0000-0002-4847-2547"},"institutions":[{"id":"https://openalex.org/I170201317","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305","country_code":"US","type":"education","lineage":["https://openalex.org/I170201317"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Hung-Ching Chang","raw_affiliation_strings":["Department of Biostatistics, School of Public Health, University of Pittsburgh , 130 De Soto St., Pittsburgh, PA 15261 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biostatistics, School of Public Health, University of Pittsburgh , 130 De Soto St., Pittsburgh, PA 15261 ,","institution_ids":["https://openalex.org/I170201317"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100655531","display_name":"Wenjia Wang","orcid":"https://orcid.org/0000-0002-5502-462X"},"institutions":[{"id":"https://openalex.org/I170201317","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305","country_code":"US","type":"education","lineage":["https://openalex.org/I170201317"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Wenjia Wang","raw_affiliation_strings":["Department of Biostatistics, School of Public Health, University of Pittsburgh , 130 De Soto St., Pittsburgh, PA 15261 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biostatistics, School of Public Health, University of Pittsburgh , 130 De Soto St., Pittsburgh, PA 15261 ,","institution_ids":["https://openalex.org/I170201317"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5051608802","display_name":"Yusi Fang","orcid":null},"institutions":[{"id":"https://openalex.org/I170201317","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305","country_code":"US","type":"education","lineage":["https://openalex.org/I170201317"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yusi Fang","raw_affiliation_strings":["Department of Biostatistics, School of Public Health, University of Pittsburgh , 130 De Soto St., Pittsburgh, PA 15261 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biostatistics, School of Public Health, University of Pittsburgh , 130 De Soto St., Pittsburgh, PA 15261 ,","institution_ids":["https://openalex.org/I170201317"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5057969622","display_name":"Xiangning Xue","orcid":"https://orcid.org/0000-0002-5775-1193"},"institutions":[{"id":"https://openalex.org/I170201317","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305","country_code":"US","type":"education","lineage":["https://openalex.org/I170201317"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Xiangning Xue","raw_affiliation_strings":["Department of Biostatistics, School of Public Health, University of Pittsburgh , 130 De Soto St., Pittsburgh, PA 15261 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biostatistics, School of Public Health, University of Pittsburgh , 130 De Soto St., Pittsburgh, PA 15261 ,","institution_ids":["https://openalex.org/I170201317"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5023539012","display_name":"Jian Zou","orcid":"https://orcid.org/0009-0006-9624-6487"},"institutions":[{"id":"https://openalex.org/I170201317","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305","country_code":"US","type":"education","lineage":["https://openalex.org/I170201317"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jian Zou","raw_affiliation_strings":["Department of Biostatistics, School of Public Health, University of Pittsburgh , 130 De Soto St., Pittsburgh, PA 15261 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biostatistics, School of Public Health, University of Pittsburgh , 130 De Soto St., Pittsburgh, PA 15261 ,","institution_ids":["https://openalex.org/I170201317"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5028888596","display_name":"Jessica M. Toothaker","orcid":"https://orcid.org/0000-0002-4535-5337"},"institutions":[{"id":"https://openalex.org/I170201317","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305","country_code":"US","type":"education","lineage":["https://openalex.org/I170201317"]},{"id":"https://openalex.org/I32971472","display_name":"Yale University","ror":"https://ror.org/03v76x132","country_code":"US","type":"education","lineage":["https://openalex.org/I32971472"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jessica M Toothaker","raw_affiliation_strings":["Department of Immunology, University of Pittsburgh , 5051 Centre Avenue, Pittsburgh, PA 15213 ,","Department of Pediatrics, Yale University , 15 York Street New Haven, CT 06510 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Immunology, University of Pittsburgh , 5051 Centre Avenue, Pittsburgh, PA 15213 ,","institution_ids":["https://openalex.org/I170201317"]},{"raw_affiliation_string":"Department of Pediatrics, Yale University , 15 York Street New Haven, CT 06510 ,","institution_ids":["https://openalex.org/I32971472"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5039851984","display_name":"Oluwabunmi Olaloye","orcid":"https://orcid.org/0000-0002-9217-3333"},"institutions":[{"id":"https://openalex.org/I32971472","display_name":"Yale University","ror":"https://ror.org/03v76x132","country_code":"US","type":"education","lineage":["https://openalex.org/I32971472"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Oluwabunmi Olaloye","raw_affiliation_strings":["Department of Pediatrics, Yale University , 15 York Street New Haven, CT 06510 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pediatrics, Yale University , 15 York Street New Haven, CT 06510 ,","institution_ids":["https://openalex.org/I32971472"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5047423754","display_name":"Eduardo Gonzalez Santiago","orcid":"https://orcid.org/0009-0007-0330-7947"},"institutions":[{"id":"https://openalex.org/I32971472","display_name":"Yale University","ror":"https://ror.org/03v76x132","country_code":"US","type":"education","lineage":["https://openalex.org/I32971472"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Eduardo Gonzalez Santiago","raw_affiliation_strings":["Department of Pediatrics, Yale University , 15 York Street New Haven, CT 06510 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pediatrics, Yale University , 15 York Street New Haven, CT 06510 ,","institution_ids":["https://openalex.org/I32971472"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5113335532","display_name":"Black McCourt","orcid":null},"institutions":[{"id":"https://openalex.org/I32971472","display_name":"Yale University","ror":"https://ror.org/03v76x132","country_code":"US","type":"education","lineage":["https://openalex.org/I32971472"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Black McCourt","raw_affiliation_strings":["Department of Pediatrics, Yale University , 15 York Street New Haven, CT 06510 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pediatrics, Yale University , 15 York Street New Haven, CT 06510 ,","institution_ids":["https://openalex.org/I32971472"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5036786028","display_name":"Vanessa Mitsialis","orcid":"https://orcid.org/0000-0002-1186-3616"},"institutions":[{"id":"https://openalex.org/I1283280774","display_name":"Brigham and Women's Hospital","ror":"https://ror.org/04b6nzv94","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1283280774","https://openalex.org/I48633490"]},{"id":"https://openalex.org/I1288882113","display_name":"Boston Children's Hospital","ror":"https://ror.org/00dvg7y05","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1288882113"]},{"id":"https://openalex.org/I136199984","display_name":"Harvard University","ror":"https://ror.org/03vek6s52","country_code":"US","type":"education","lineage":["https://openalex.org/I136199984"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Vanessa Mitsialis","raw_affiliation_strings":["Department of Medicine, Division of Gastroenterology, Hepatology, and Endoscopy, Brigham & Women\u2019s Hospital and Department of Medicine, Harvard Medical School , 300 Longwood Ave., Boston, MA 02115 ,","Department of Pediatrics, Division of Gastroenterology, Hepatology, and Nutrition, Boston Children\u2019s Hospital and Department of Pediatrics, Harvard Medical School , 300 Longwood Ave., Boston, MA 02115 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Medicine, Division of Gastroenterology, Hepatology, and Endoscopy, Brigham & Women\u2019s Hospital and Department of Medicine, Harvard Medical School , 300 Longwood Ave., Boston, MA 02115 ,","institution_ids":["https://openalex.org/I1283280774","https://openalex.org/I136199984"]},{"raw_affiliation_string":"Department of Pediatrics, Division of Gastroenterology, Hepatology, and Nutrition, Boston Children\u2019s Hospital and Department of Pediatrics, Harvard Medical School , 300 Longwood Ave., Boston, MA 02115 ,","institution_ids":["https://openalex.org/I1288882113","https://openalex.org/I136199984"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5017586857","display_name":"Pietro Presicce","orcid":"https://orcid.org/0000-0002-2690-1814"},"institutions":[{"id":"https://openalex.org/I161318765","display_name":"University of California, Los Angeles","ror":"https://ror.org/046rm7j60","country_code":"US","type":"education","lineage":["https://openalex.org/I161318765"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Pietro Presicce","raw_affiliation_strings":["Division of Neonatology and Developmental Biology, David Geffen School of Medicine at the University of California Los Angeles , 757 Westwood Plaza, Los Angeles, CA 90095 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Division of Neonatology and Developmental Biology, David Geffen School of Medicine at the University of California Los Angeles , 757 Westwood Plaza, Los Angeles, CA 90095 ,","institution_ids":["https://openalex.org/I161318765"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5087040492","display_name":"Suhas G. Kallapur","orcid":"https://orcid.org/0000-0003-3160-8126"},"institutions":[{"id":"https://openalex.org/I161318765","display_name":"University of California, Los Angeles","ror":"https://ror.org/046rm7j60","country_code":"US","type":"education","lineage":["https://openalex.org/I161318765"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Suhas G Kallapur","raw_affiliation_strings":["Division of Neonatology and Developmental Biology, David Geffen School of Medicine at the University of California Los Angeles , 757 Westwood Plaza, Los Angeles, CA 90095 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Division of Neonatology and Developmental Biology, David Geffen School of Medicine at the University of California Los Angeles , 757 Westwood Plaza, Los Angeles, CA 90095 ,","institution_ids":["https://openalex.org/I161318765"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5052060864","display_name":"Scott B. Snapper","orcid":"https://orcid.org/0000-0003-0267-4247"},"institutions":[{"id":"https://openalex.org/I1283280774","display_name":"Brigham and Women's Hospital","ror":"https://ror.org/04b6nzv94","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1283280774","https://openalex.org/I48633490"]},{"id":"https://openalex.org/I1288882113","display_name":"Boston Children's Hospital","ror":"https://ror.org/00dvg7y05","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1288882113"]},{"id":"https://openalex.org/I136199984","display_name":"Harvard University","ror":"https://ror.org/03vek6s52","country_code":"US","type":"education","lineage":["https://openalex.org/I136199984"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Scott B Snapper","raw_affiliation_strings":["Department of Medicine, Division of Gastroenterology, Hepatology, and Endoscopy, Brigham & Women\u2019s Hospital and Department of Medicine, Harvard Medical School , 300 Longwood Ave., Boston, MA 02115 ,","Department of Pediatrics, Division of Gastroenterology, Hepatology, and Nutrition, Boston Children\u2019s Hospital and Department of Pediatrics, Harvard Medical School , 300 Longwood Ave., Boston, MA 02115 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Medicine, Division of Gastroenterology, Hepatology, and Endoscopy, Brigham & Women\u2019s Hospital and Department of Medicine, Harvard Medical School , 300 Longwood Ave., Boston, MA 02115 ,","institution_ids":["https://openalex.org/I1283280774","https://openalex.org/I136199984"]},{"raw_affiliation_string":"Department of Pediatrics, Division of Gastroenterology, Hepatology, and Nutrition, Boston Children\u2019s Hospital and Department of Pediatrics, Harvard Medical School , 300 Longwood Ave., Boston, MA 02115 ,","institution_ids":["https://openalex.org/I1288882113","https://openalex.org/I136199984"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100661976","display_name":"Jiajun Liu","orcid":"https://orcid.org/0000-0002-1855-5384"},"institutions":[{"id":"https://openalex.org/I170201317","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305","country_code":"US","type":"education","lineage":["https://openalex.org/I170201317"]},{"id":"https://openalex.org/I2799424032","display_name":"Discovery Institute","ror":"https://ror.org/05t8s3y29","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I2799424032"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jia-Jun Liu","raw_affiliation_strings":["Drug Discovery Institute, School of Medicine, University of Pittsburgh , 700 Technology Dr, Pittsburgh, PA 15219 ,","Pittsburgh Liver Research Center, School of Medicine, University of Pittsburgh , 200 Lothrop Street, Pittsburgh, PA 15261 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Drug Discovery Institute, School of Medicine, University of Pittsburgh , 700 Technology Dr, Pittsburgh, PA 15219 ,","institution_ids":["https://openalex.org/I2799424032","https://openalex.org/I170201317"]},{"raw_affiliation_string":"Pittsburgh Liver Research Center, School of Medicine, University of Pittsburgh , 200 Lothrop Street, Pittsburgh, PA 15261 ,","institution_ids":["https://openalex.org/I170201317"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5023821329","display_name":"George C. Tseng","orcid":"https://orcid.org/0000-0002-5447-1014"},"institutions":[{"id":"https://openalex.org/I170201317","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305","country_code":"US","type":"education","lineage":["https://openalex.org/I170201317"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"George C Tseng","raw_affiliation_strings":["Computational and Systems Biology, School of Medicine, University of Pittsburgh , 3420 Forbes Avenue, Pittsburgh, PA 15213 ,","Department of Biostatistics, School of Public Health, University of Pittsburgh , 130 De Soto St., Pittsburgh, PA 15261 ,"],"raw_orcid":"https://orcid.org/0000-0002-5447-1014","affiliations":[{"raw_affiliation_string":"Computational and Systems Biology, School of Medicine, University of Pittsburgh , 3420 Forbes Avenue, Pittsburgh, PA 15213 ,","institution_ids":["https://openalex.org/I170201317"]},{"raw_affiliation_string":"Department of Biostatistics, School of Public Health, University of Pittsburgh , 130 De Soto St., Pittsburgh, PA 15261 ,","institution_ids":["https://openalex.org/I170201317"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5054972029","display_name":"Liza Konnikova","orcid":"https://orcid.org/0000-0003-4804-5497"},"institutions":[{"id":"https://openalex.org/I161318765","display_name":"University of California, Los Angeles","ror":"https://ror.org/046rm7j60","country_code":"US","type":"education","lineage":["https://openalex.org/I161318765"]},{"id":"https://openalex.org/I32971472","display_name":"Yale University","ror":"https://ror.org/03v76x132","country_code":"US","type":"education","lineage":["https://openalex.org/I32971472"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Liza Konnikova","raw_affiliation_strings":["Center for Systems and Engineering Immunology, Yale University , 100 College St., New Haven, CT 06510 ,","Department of Immunobiology, Yale University , 300 Cedar Street, New Haven, CT 06520 ,","Department of Obstetrics, Gynecology and Reproductive Sciences, Yale University , 333 Cedar Street, New Haven, CT 06510 ,","Department of Pediatrics, Yale University , 15 York Street New Haven, CT 06510 ,","Division of Neonatology and Developmental Biology, David Geffen School of Medicine at the University of California Los Angeles , 757 Westwood Plaza, Los Angeles, CA 90095 ,","Program in Human and Translational Immunology, Yale University , 300 Cedar Street, New Haven, CT 06520 ,","Program in Translational Biomedicine, Yale University , 300 Cedar Street, New Haven, CT 06520 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Systems and Engineering Immunology, Yale University , 100 College St., New Haven, CT 06510 ,","institution_ids":["https://openalex.org/I32971472"]},{"raw_affiliation_string":"Department of Immunobiology, Yale University , 300 Cedar Street, New Haven, CT 06520 ,","institution_ids":["https://openalex.org/I32971472"]},{"raw_affiliation_string":"Department of Obstetrics, Gynecology and Reproductive Sciences, Yale University , 333 Cedar Street, New Haven, CT 06510 ,","institution_ids":["https://openalex.org/I32971472"]},{"raw_affiliation_string":"Department of Pediatrics, Yale University , 15 York Street New Haven, CT 06510 ,","institution_ids":["https://openalex.org/I32971472"]},{"raw_affiliation_string":"Division of Neonatology and Developmental Biology, David Geffen School of Medicine at the University of California Los Angeles , 757 Westwood Plaza, Los Angeles, CA 90095 ,","institution_ids":["https://openalex.org/I161318765"]},{"raw_affiliation_string":"Program in Human and Translational Immunology, Yale University , 300 Cedar Street, New Haven, CT 06520 ,","institution_ids":["https://openalex.org/I32971472"]},{"raw_affiliation_string":"Program in Translational Biomedicine, Yale University , 300 Cedar Street, New Haven, CT 06520 ,","institution_ids":["https://openalex.org/I32971472"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5026265047","display_name":"Silvia Liu","orcid":"https://orcid.org/0000-0002-1840-9520"},"institutions":[{"id":"https://openalex.org/I170201317","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305","country_code":"US","type":"education","lineage":["https://openalex.org/I170201317"]},{"id":"https://openalex.org/I2799424032","display_name":"Discovery Institute","ror":"https://ror.org/05t8s3y29","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I2799424032"]},{"id":"https://openalex.org/I4210128526","display_name":"UPMC Hillman Cancer Center","ror":"https://ror.org/03bw34a45","country_code":"US","type":"facility","lineage":["https://openalex.org/I170201317","https://openalex.org/I4210128526"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Silvia Liu","raw_affiliation_strings":["Computational and Systems Biology, School of Medicine, University of Pittsburgh , 3420 Forbes Avenue, Pittsburgh, PA 15213 ,","Department of Pharmacology and Chemical Biology, School of Medicine, University of Pittsburgh , 200 Lothrop St., Pittsburgh, PA 15261 ,","Drug Discovery Institute, School of Medicine, University of Pittsburgh , 700 Technology Dr, Pittsburgh, PA 15219 ,","Hillman Cancer Center, University of Pittsburgh , 5150 Centre Ave., Pittsburgh, PA 15232 ,","Pittsburgh Liver Research Center, School of Medicine, University of Pittsburgh , 200 Lothrop Street, Pittsburgh, PA 15261 ,"],"raw_orcid":"https://orcid.org/0000-0002-1840-9520","affiliations":[{"raw_affiliation_string":"Computational and Systems Biology, School of Medicine, University of Pittsburgh , 3420 Forbes Avenue, Pittsburgh, PA 15213 ,","institution_ids":["https://openalex.org/I170201317"]},{"raw_affiliation_string":"Department of Pharmacology and Chemical Biology, School of Medicine, University of Pittsburgh , 200 Lothrop St., Pittsburgh, PA 15261 ,","institution_ids":["https://openalex.org/I170201317"]},{"raw_affiliation_string":"Drug Discovery Institute, School of Medicine, University of Pittsburgh , 700 Technology Dr, Pittsburgh, PA 15219 ,","institution_ids":["https://openalex.org/I2799424032","https://openalex.org/I170201317"]},{"raw_affiliation_string":"Hillman Cancer Center, University of Pittsburgh , 5150 Centre Ave., Pittsburgh, PA 15232 ,","institution_ids":["https://openalex.org/I4210128526"]},{"raw_affiliation_string":"Pittsburgh Liver Research Center, School of Medicine, University of Pittsburgh , 200 Lothrop Street, Pittsburgh, PA 15261 ,","institution_ids":["https://openalex.org/I170201317"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":9,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":{"value":4011,"currency":"USD","value_usd":4011},"fwci":2.2394,"has_fulltext":true,"cited_by_count":12,"citation_normalized_percentile":{"value":0.88654815,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":96,"max":99},"biblio":{"volume":"26","issue":"1","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":0.9994000196456909,"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":0.9994000196456909,"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":0.9943000078201294,"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/T10885","display_name":"Gene expression and cancer classification","score":0.986299991607666,"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/gating","display_name":"Gating","score":0.9472547769546509},{"id":"https://openalex.org/keywords/cluster-analysis","display_name":"Cluster analysis","score":0.7488501667976379},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5943321585655212},{"id":"https://openalex.org/keywords/guideline","display_name":"Guideline","score":0.5768674612045288},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.42594027519226074},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.3421955704689026},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3266124129295349},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.15214219689369202},{"id":"https://openalex.org/keywords/neuroscience","display_name":"Neuroscience","score":0.09106522798538208},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.06344854831695557}],"concepts":[{"id":"https://openalex.org/C194544171","wikidata":"https://www.wikidata.org/wiki/Q21105679","display_name":"Gating","level":2,"score":0.9472547769546509},{"id":"https://openalex.org/C73555534","wikidata":"https://www.wikidata.org/wiki/Q622825","display_name":"Cluster analysis","level":2,"score":0.7488501667976379},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5943321585655212},{"id":"https://openalex.org/C2780182762","wikidata":"https://www.wikidata.org/wiki/Q1630279","display_name":"Guideline","level":2,"score":0.5768674612045288},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.42594027519226074},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.3421955704689026},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3266124129295349},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.15214219689369202},{"id":"https://openalex.org/C169760540","wikidata":"https://www.wikidata.org/wiki/Q207011","display_name":"Neuroscience","level":1,"score":0.09106522798538208},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.06344854831695557},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"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":"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":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005434","descriptor_name":"Flow Cytometry","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D005434","descriptor_name":"Flow Cytometry","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D005434","descriptor_name":"Flow Cytometry","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D005434","descriptor_name":"Flow Cytometry","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D005434","descriptor_name":"Flow Cytometry","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D005434","descriptor_name":"Flow Cytometry","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D005434","descriptor_name":"Flow Cytometry","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"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":"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":"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":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/bib/bbae633","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbae633","pdf_url":"https://academic.oup.com/bib/article-pdf/26/1/bbae633/60949869/bbae633.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":true,"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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:39656848","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/39656848","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in bioinformatics","raw_type":null},{"id":"pmh:oai:escholarship.org:ark:/13030/qt3hk080z6","is_oa":true,"landing_page_url":"https://escholarship.org/uc/item/3hk080z6","pdf_url":"https://escholarship.org/content/qt3hk080z6/qt3hk080z6.pdf","source":{"id":"https://openalex.org/S4306400115","display_name":"eScholarship (California Digital Library)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2801248553","host_organization_name":"California Digital Library","host_organization_lineage":["https://openalex.org/I2801248553"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Briefings in Bioinformatics, vol 26, iss 1","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:11630031","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11630031","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11630031/pdf/bbae633.pdf","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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Brief Bioinform","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bib/bbae633","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbae633","pdf_url":"https://academic.oup.com/bib/article-pdf/26/1/bbae633/60949869/bbae633.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":true,"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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1749073659","display_name":null,"funder_award_id":"R01 LM014142","funder_id":"https://openalex.org/F4320337372","funder_display_name":"U.S. National Library of Medicine"},{"id":"https://openalex.org/G2207340677","display_name":null,"funder_award_id":"S10 OD028483","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G642779400","display_name":null,"funder_award_id":"S10OD028483","funder_id":"https://openalex.org/F4320310174","funder_display_name":"University of Pittsburgh"},{"id":"https://openalex.org/G7816401740","display_name":null,"funder_award_id":"UL1 TR001863","funder_id":"https://openalex.org/F4320337472","funder_display_name":"National Center for Advancing Translational Sciences"},{"id":"https://openalex.org/G865749150","display_name":null,"funder_award_id":"S10OD028483","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G8857052425","display_name":null,"funder_award_id":"P30 DK120531","funder_id":"https://openalex.org/F4320337357","funder_display_name":"National Institute of Diabetes and Digestive and Kidney Diseases"}],"funders":[{"id":"https://openalex.org/F4320310174","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305"},{"id":"https://openalex.org/F4320320794","display_name":"Canterbury Medical Research Foundation","ror":"https://ror.org/01kr2nz80"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320333934","display_name":"Center for Research Computing, University of Pittsburgh","ror":null},{"id":"https://openalex.org/F4320337357","display_name":"National Institute of Diabetes and Digestive and Kidney Diseases","ror":"https://ror.org/00adh9b73"},{"id":"https://openalex.org/F4320337372","display_name":"U.S. National Library of Medicine","ror":"https://ror.org/0060t0j89"},{"id":"https://openalex.org/F4320337472","display_name":"National Center for Advancing Translational Sciences","ror":"https://ror.org/04pw6fb54"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4405231023.pdf","grobid_xml":"https://content.openalex.org/works/W4405231023.grobid-xml"},"referenced_works_count":109,"referenced_works":["https://openalex.org/W1607921872","https://openalex.org/W1631320694","https://openalex.org/W1712930509","https://openalex.org/W1810935231","https://openalex.org/W1965827638","https://openalex.org/W1966976587","https://openalex.org/W1980081406","https://openalex.org/W1981600092","https://openalex.org/W1985426173","https://openalex.org/W1989838792","https://openalex.org/W1993835819","https://openalex.org/W2009474665","https://openalex.org/W2015671099","https://openalex.org/W2038254572","https://openalex.org/W2047594345","https://openalex.org/W2070503238","https://openalex.org/W2073256527","https://openalex.org/W2087932775","https://openalex.org/W2095664313","https://openalex.org/W2101038583","https://openalex.org/W2114124472","https://openalex.org/W2143451223","https://openalex.org/W2150756255","https://openalex.org/W2158333823","https://openalex.org/W2187089797","https://openalex.org/W2286340588","https://openalex.org/W2321361127","https://openalex.org/W2336477031","https://openalex.org/W2346039638","https://openalex.org/W2358421111","https://openalex.org/W2461073387","https://openalex.org/W2522948376","https://openalex.org/W2585665652","https://openalex.org/W2612538354","https://openalex.org/W2754650175","https://openalex.org/W2761095749","https://openalex.org/W2778357085","https://openalex.org/W2779108238","https://openalex.org/W2788915007","https://openalex.org/W2797830756","https://openalex.org/W2884964182","https://openalex.org/W2886475686","https://openalex.org/W2887314269","https://openalex.org/W2889910793","https://openalex.org/W2898107644","https://openalex.org/W2903633818","https://openalex.org/W2920999075","https://openalex.org/W2944207955","https://openalex.org/W2944222137","https://openalex.org/W2949689367","https://openalex.org/W2950017555","https://openalex.org/W2950212929","https://openalex.org/W2950651665","https://openalex.org/W2950814274","https://openalex.org/W2951566836","https://openalex.org/W2952775948","https://openalex.org/W2955980564","https://openalex.org/W2979415693","https://openalex.org/W2981977483","https://openalex.org/W2997055652","https://openalex.org/W2998517834","https://openalex.org/W3005698181","https://openalex.org/W3021526713","https://openalex.org/W3022594111","https://openalex.org/W3028124928","https://openalex.org/W3042413312","https://openalex.org/W3106594176","https://openalex.org/W3117334934","https://openalex.org/W3127956128","https://openalex.org/W3131148704","https://openalex.org/W3138479716","https://openalex.org/W3138608760","https://openalex.org/W3158706601","https://openalex.org/W3159101980","https://openalex.org/W3164643943","https://openalex.org/W3173648257","https://openalex.org/W3201135237","https://openalex.org/W3215507963","https://openalex.org/W4200189327","https://openalex.org/W4205330665","https://openalex.org/W4206962000","https://openalex.org/W4210840193","https://openalex.org/W4213011472","https://openalex.org/W4214740783","https://openalex.org/W4221083765","https://openalex.org/W4240098044","https://openalex.org/W4294214983","https://openalex.org/W4297243391","https://openalex.org/W4306639438","https://openalex.org/W4309323702","https://openalex.org/W4312182122","https://openalex.org/W4321452549","https://openalex.org/W4322768301","https://openalex.org/W4360601347","https://openalex.org/W4375843241","https://openalex.org/W4379521442","https://openalex.org/W4385515928","https://openalex.org/W4386408720","https://openalex.org/W4386422397","https://openalex.org/W4389210152","https://openalex.org/W4389296201","https://openalex.org/W4390783938","https://openalex.org/W4391964960","https://openalex.org/W4392157110","https://openalex.org/W4392231300","https://openalex.org/W4393131919","https://openalex.org/W4393153069","https://openalex.org/W4393169957","https://openalex.org/W6860347561"],"related_works":["https://openalex.org/W2031449089","https://openalex.org/W2112596406","https://openalex.org/W2125499229","https://openalex.org/W2072696177","https://openalex.org/W4385304246","https://openalex.org/W4387096269","https://openalex.org/W2410610877","https://openalex.org/W2339422290","https://openalex.org/W2129483036","https://openalex.org/W2368671581"],"abstract_inverted_index":{"Cytometry":[0],"is":[1],"an":[2],"advanced":[3],"technique":[4],"for":[5,87,179,191],"simultaneously":[6],"identifying":[7,25],"and":[8,13,26,41,59,67,75,121,137,153,186],"quantifying":[9,27],"many":[10],"cell":[11,28],"surface":[12],"intracellular":[14],"proteins":[15],"at":[16],"a":[17,38],"single-cell":[18],"resolution.":[19],"Analyzing":[20],"high-dimensional":[21],"cytometry":[22,52],"data":[23],"involves":[24],"populations":[29,49],"based":[30,169],"on":[31,165,170],"their":[32,192],"marker":[33],"expressions.":[34],"This":[35,174],"study":[36,175],"provided":[37,162],"quantitative":[39],"review":[40],"comparison":[42],"of":[43,116],"various":[44],"ways":[45],"to":[46,98,181],"phenotype":[47],"cellular":[48],"within":[50],"the":[51,73,85,100,119,158,188],"data,":[53],"including":[54,132],"manual":[55,76,90],"gating,":[56,91],"unsupervised":[57,107],"clustering,":[58,108],"supervised":[60,144],"auto-gating.":[61],"Six":[62],"datasets":[63],"from":[64,93],"diverse":[65,183],"species":[66],"sample":[68],"types":[69],"were":[70,96,111,149],"included":[71],"in":[72,114],"study,":[74],"gating":[77,101,167,184],"with":[78,118],"two":[79],"hierarchical":[80],"layers":[81],"was":[82],"used":[83],"as":[84],"truth":[86,120],"evaluation.":[88],"For":[89,106,143],"results":[92],"five":[94],"researchers":[95],"compared":[97,113],"illustrate":[99],"consistency":[102],"among":[103],"different":[104,171],"raters.":[105],"23":[109],"tools":[110],"quantitatively":[112],"terms":[115],"accuracy":[117],"computing":[122],"cost.":[123],"While":[124],"no":[125],"method":[126],"outperformed":[127],"all":[128],"others,":[129],"several":[130],"tools,":[131],"PAC-MAN,":[133],"CCAST,":[134],"FlowSOM,":[135],"flowClust,":[136],"DEPECHE,":[138],"generally":[139],"demonstrated":[140],"strong":[141],"performance.":[142],"auto-gating":[145],"methods,":[146],"four":[147],"algorithms":[148],"evaluated,":[150],"where":[151],"DeepCyTOF":[152],"CyTOF":[154],"Linear":[155],"Classifier":[156],"performed":[157],"best.":[159],"We":[160],"further":[161],"practical":[163],"recommendations":[164],"prioritizing":[166],"methods":[168,185],"application":[172],"scenarios.":[173],"offers":[176],"comprehensive":[177],"insights":[178],"biologists":[180],"understand":[182],"choose":[187],"best-suited":[189],"ones":[190],"applications.":[193]},"counts_by_year":[{"year":2026,"cited_by_count":5},{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":3}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}