{"id":"https://openalex.org/W4366982232","doi":"https://doi.org/10.1093/bioinformatics/btad287","title":"pyInfinityFlow: optimized imputation and analysis of high-dimensional flow cytometry data for millions of cells","display_name":"pyInfinityFlow: optimized imputation and analysis of high-dimensional flow cytometry data for millions of cells","publication_year":2023,"publication_date":"2023-04-25","ids":{"openalex":"https://openalex.org/W4366982232","doi":"https://doi.org/10.1093/bioinformatics/btad287","pmid":"https://pubmed.ncbi.nlm.nih.gov/37097893"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btad287","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btad287","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btad287/50094333/btad287.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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","license_id":"https://openalex.org/licenses/cc-by","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":"gold","oa_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btad287/50094333/btad287.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5044114629","display_name":"Kyle Ferchen","orcid":"https://orcid.org/0000-0002-3470-3623"},"institutions":[{"id":"https://openalex.org/I1285204247","display_name":"Cincinnati Children's Hospital Medical Center","ror":"https://ror.org/01hcyya48","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1285204247"]},{"id":"https://openalex.org/I63135867","display_name":"University of Cincinnati","ror":"https://ror.org/01e3m7079","country_code":"US","type":"education","lineage":["https://openalex.org/I63135867"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Kyle Ferchen","raw_affiliation_strings":["Cancer and Cellular Biology, University of Cincinnati , Cincinnati, OH 45229, United States","Immunobiology, Cincinnati Children\u2019s Hospital Medical Center , Cincinnati, OH 45229, United States"],"affiliations":[{"raw_affiliation_string":"Cancer and Cellular Biology, University of Cincinnati , Cincinnati, OH 45229, United States","institution_ids":["https://openalex.org/I63135867"]},{"raw_affiliation_string":"Immunobiology, Cincinnati Children\u2019s Hospital Medical Center , Cincinnati, OH 45229, United States","institution_ids":["https://openalex.org/I1285204247"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5058320928","display_name":"Nathan Salomonis","orcid":"https://orcid.org/0000-0001-9689-2469"},"institutions":[{"id":"https://openalex.org/I1285204247","display_name":"Cincinnati Children's Hospital Medical Center","ror":"https://ror.org/01hcyya48","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1285204247"]},{"id":"https://openalex.org/I63135867","display_name":"University of Cincinnati","ror":"https://ror.org/01e3m7079","country_code":"US","type":"education","lineage":["https://openalex.org/I63135867"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Nathan Salomonis","raw_affiliation_strings":["Biomedical Informatics, Cincinnati Children\u2019s Hospital Medical Center , Cincinnati, OH 45229, United States","Department of Pediatrics, University of Cincinnati , Cincinnati, OH 45229, United States"],"affiliations":[{"raw_affiliation_string":"Biomedical Informatics, Cincinnati Children\u2019s Hospital Medical Center , Cincinnati, OH 45229, United States","institution_ids":["https://openalex.org/I1285204247"]},{"raw_affiliation_string":"Department of Pediatrics, University of Cincinnati , Cincinnati, OH 45229, United States","institution_ids":["https://openalex.org/I63135867"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5050419480","display_name":"H. Leighton Grimes","orcid":"https://orcid.org/0000-0001-8162-6758"},"institutions":[{"id":"https://openalex.org/I1285204247","display_name":"Cincinnati Children's Hospital Medical Center","ror":"https://ror.org/01hcyya48","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1285204247"]},{"id":"https://openalex.org/I63135867","display_name":"University of Cincinnati","ror":"https://ror.org/01e3m7079","country_code":"US","type":"education","lineage":["https://openalex.org/I63135867"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"H Leighton Grimes","raw_affiliation_strings":["Department of Pediatrics, University of Cincinnati , Cincinnati, OH 45229, United States","Experimental Hematology and Cancer Biology, Cincinnati Children\u2019s Hospital Medical Center , Cincinnati, OH 45229, United States","Immunobiology, Cincinnati Children\u2019s Hospital Medical Center , Cincinnati, OH 45229, United States"],"affiliations":[{"raw_affiliation_string":"Department of Pediatrics, University of Cincinnati , Cincinnati, OH 45229, United States","institution_ids":["https://openalex.org/I63135867"]},{"raw_affiliation_string":"Experimental Hematology and Cancer Biology, Cincinnati Children\u2019s Hospital Medical Center , Cincinnati, OH 45229, United States","institution_ids":["https://openalex.org/I1285204247"]},{"raw_affiliation_string":"Immunobiology, Cincinnati Children\u2019s Hospital Medical Center , Cincinnati, OH 45229, United States","institution_ids":["https://openalex.org/I1285204247"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5050419480"],"corresponding_institution_ids":["https://openalex.org/I1285204247","https://openalex.org/I63135867"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.3045,"has_fulltext":true,"cited_by_count":2,"citation_normalized_percentile":{"value":0.62501359,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":95},"biblio":{"volume":"39","issue":"5","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":1.0,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":1.0,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9810000061988831,"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":0.9783999919891357,"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":0.8405178785324097},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7817411422729492},{"id":"https://openalex.org/keywords/scripting-language","display_name":"Scripting language","score":0.6787294745445251},{"id":"https://openalex.org/keywords/workflow","display_name":"Workflow","score":0.6606197953224182},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.4491882920265198},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3907087445259094},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.3031027317047119},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.2963141202926636}],"concepts":[{"id":"https://openalex.org/C519991488","wikidata":"https://www.wikidata.org/wiki/Q28865","display_name":"Python (programming language)","level":2,"score":0.8405178785324097},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7817411422729492},{"id":"https://openalex.org/C61423126","wikidata":"https://www.wikidata.org/wiki/Q187432","display_name":"Scripting language","level":2,"score":0.6787294745445251},{"id":"https://openalex.org/C177212765","wikidata":"https://www.wikidata.org/wiki/Q627335","display_name":"Workflow","level":2,"score":0.6606197953224182},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.4491882920265198},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3907087445259094},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.3031027317047119},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.2963141202926636}],"mesh":[{"descriptor_ui":"D004282","descriptor_name":"Documentation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004282","descriptor_name":"Documentation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004282","descriptor_name":"Documentation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004282","descriptor_name":"Documentation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004282","descriptor_name":"Documentation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005434","descriptor_name":"Flow Cytometry","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005434","descriptor_name":"Flow Cytometry","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005434","descriptor_name":"Flow Cytometry","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005434","descriptor_name":"Flow Cytometry","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005434","descriptor_name":"Flow Cytometry","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":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btad287","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btad287","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btad287/50094333/btad287.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:37097893","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/37097893","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:pubmedcentral.nih.gov:10166583","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10166583","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10166583/pdf/btad287.pdf","source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btad287","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btad287","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btad287/50094333/btad287.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1357612117","display_name":null,"funder_award_id":"U54 DK126108","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G1585175298","display_name":null,"funder_award_id":"U24HL148865","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G2169959824","display_name":null,"funder_award_id":"RC2DK122376","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G2567639249","display_name":null,"funder_award_id":"HL148865","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G5498147841","display_name":null,"funder_award_id":"S10OD025045","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G6165503092","display_name":null,"funder_award_id":"R01HL122661","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G954113133","display_name":null,"funder_award_id":"R01DK121062","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320309575","display_name":"Cincinnati Children's Hospital Medical Center","ror":"https://ror.org/01hcyya48"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4366982232.pdf"},"referenced_works_count":13,"referenced_works":["https://openalex.org/W2038254572","https://openalex.org/W2739492614","https://openalex.org/W2800392236","https://openalex.org/W2897249806","https://openalex.org/W2970751796","https://openalex.org/W2973370607","https://openalex.org/W3012642346","https://openalex.org/W3106188259","https://openalex.org/W3196440955","https://openalex.org/W3200665524","https://openalex.org/W3215605010","https://openalex.org/W4229366049","https://openalex.org/W4385381520"],"related_works":["https://openalex.org/W2905906027","https://openalex.org/W4253191544","https://openalex.org/W4210575980","https://openalex.org/W2976389110","https://openalex.org/W2047554624","https://openalex.org/W3205017083","https://openalex.org/W4294955967","https://openalex.org/W2736839483","https://openalex.org/W2951471110","https://openalex.org/W3149566383"],"abstract_inverted_index":{"pyInfinityFlow":[0],"is":[1,19],"freely":[2],"available":[3,20,35],"in":[4],"GitHub":[5],"(https://github.com/KyleFerchen/pyInfinityFlow)":[6],"and":[7,28],"on":[8,15],"PyPI":[9],"(https://pypi.org/project/pyInfinityFlow/).":[10],"Package":[11],"documentation":[12],"with":[13,39],"tutorials":[14],"a":[16],"test":[17],"dataset":[18],"by":[21],"Read":[22],"the":[23,32,40],"Docs":[24],"(pyinfinityflow.readthedocs.io).":[25],"The":[26],"scripts":[27],"data":[29],"for":[30],"reproducing":[31],"results":[33],"are":[34],"at":[36],"https://github.com/KyleFerchen/pyInfinityFlow/tree/main/analysis_scripts,":[37],"along":[38],"raw":[41],"flow":[42],"cytometry":[43],"input":[44],"data.":[45]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
