{"id":"https://openalex.org/W4385547792","doi":"https://doi.org/10.1016/j.patter.2023.100814","title":"Interactive analysis of single-cell data using flexible workflows with SCTK2","display_name":"Interactive analysis of single-cell data using flexible workflows with SCTK2","publication_year":2023,"publication_date":"2023-08-01","ids":{"openalex":"https://openalex.org/W4385547792","doi":"https://doi.org/10.1016/j.patter.2023.100814","pmid":"https://pubmed.ncbi.nlm.nih.gov/37602214"},"language":"en","primary_location":{"id":"doi:10.1016/j.patter.2023.100814","is_oa":true,"landing_page_url":"https://doi.org/10.1016/j.patter.2023.100814","pdf_url":"http://www.cell.com/article/S2666389923001824/pdf","source":{"id":"https://openalex.org/S4210198061","display_name":"Patterns","issn_l":"2666-3899","issn":["2666-3899"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Patterns","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"http://www.cell.com/article/S2666389923001824/pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100373200","display_name":"Yichen Wang","orcid":"https://orcid.org/0000-0003-4347-5199"},"institutions":[{"id":"https://openalex.org/I111088046","display_name":"Boston University","ror":"https://ror.org/05qwgg493","country_code":"US","type":"education","lineage":["https://openalex.org/I111088046"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yichen Wang","raw_affiliation_strings":["Section of Computational Biomedicine, Boston University School of Medicine, Boston, MA, USA"],"raw_orcid":"https://orcid.org/0000-0003-4347-5199","affiliations":[{"raw_affiliation_string":"Section of Computational Biomedicine, Boston University School of Medicine, Boston, MA, USA","institution_ids":["https://openalex.org/I111088046"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5087083497","display_name":"Irzam Sarfraz","orcid":"https://orcid.org/0000-0001-8121-792X"},"institutions":[{"id":"https://openalex.org/I111088046","display_name":"Boston University","ror":"https://ror.org/05qwgg493","country_code":"US","type":"education","lineage":["https://openalex.org/I111088046"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Irzam Sarfraz","raw_affiliation_strings":["Bioinformatics Program, Boston University, Boston, MA, USA","Section of Computational Biomedicine, Boston University School of Medicine, Boston, MA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bioinformatics Program, Boston University, Boston, MA, USA","institution_ids":["https://openalex.org/I111088046"]},{"raw_affiliation_string":"Section of Computational Biomedicine, Boston University School of Medicine, Boston, MA, USA","institution_ids":["https://openalex.org/I111088046"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5024387308","display_name":"Nida Pervaiz","orcid":null},"institutions":[{"id":"https://openalex.org/I111088046","display_name":"Boston University","ror":"https://ror.org/05qwgg493","country_code":"US","type":"education","lineage":["https://openalex.org/I111088046"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Nida Pervaiz","raw_affiliation_strings":["Section of Computational Biomedicine, Boston University School of Medicine, Boston, MA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Section of Computational Biomedicine, Boston University School of Medicine, Boston, MA, USA","institution_ids":["https://openalex.org/I111088046"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083074159","display_name":"Rui Hong","orcid":"https://orcid.org/0000-0002-2050-9010"},"institutions":[{"id":"https://openalex.org/I111088046","display_name":"Boston University","ror":"https://ror.org/05qwgg493","country_code":"US","type":"education","lineage":["https://openalex.org/I111088046"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Rui Hong","raw_affiliation_strings":["Bioinformatics Program, Boston University, Boston, MA, USA","Section of Computational Biomedicine, Boston University School of Medicine, Boston, MA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bioinformatics Program, Boston University, Boston, MA, USA","institution_ids":["https://openalex.org/I111088046"]},{"raw_affiliation_string":"Section of Computational Biomedicine, Boston University School of Medicine, Boston, MA, USA","institution_ids":["https://openalex.org/I111088046"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5029681824","display_name":"Yusuke Koga","orcid":"https://orcid.org/0000-0003-4875-6598"},"institutions":[{"id":"https://openalex.org/I111088046","display_name":"Boston University","ror":"https://ror.org/05qwgg493","country_code":"US","type":"education","lineage":["https://openalex.org/I111088046"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yusuke Koga","raw_affiliation_strings":["Bioinformatics Program, Boston University, Boston, MA, USA","Section of Computational Biomedicine, Boston University School of Medicine, Boston, MA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bioinformatics Program, Boston University, Boston, MA, USA","institution_ids":["https://openalex.org/I111088046"]},{"raw_affiliation_string":"Section of Computational Biomedicine, Boston University School of Medicine, Boston, MA, USA","institution_ids":["https://openalex.org/I111088046"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5055553971","display_name":"Vidya Akavoor","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Vidya Akavoor","raw_affiliation_strings":["Software & Application Innovation Lab, Rafik B. Hariri Institute for Computing and Computational Science and Engineering, Boston, MA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Software & Application Innovation Lab, Rafik B. Hariri Institute for Computing and Computational Science and Engineering, Boston, MA, USA","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001821663","display_name":"Xinyun Cao","orcid":"https://orcid.org/0000-0002-7346-3909"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Xinyun Cao","raw_affiliation_strings":["Software & Application Innovation Lab, Rafik B. Hariri Institute for Computing and Computational Science and Engineering, Boston, MA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Software & Application Innovation Lab, Rafik B. Hariri Institute for Computing and Computational Science and Engineering, Boston, MA, USA","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5134386743","display_name":"Salam AlAbdullatif","orcid":"https://orcid.org/0009-0000-9815-3256"},"institutions":[{"id":"https://openalex.org/I111088046","display_name":"Boston University","ror":"https://ror.org/05qwgg493","country_code":"US","type":"education","lineage":["https://openalex.org/I111088046"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Salam Alabdullatif","raw_affiliation_strings":["Section of Computational Biomedicine, Boston University School of Medicine, Boston, MA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Section of Computational Biomedicine, Boston University School of Medicine, Boston, MA, USA","institution_ids":["https://openalex.org/I111088046"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5057472126","display_name":"Syed Ali Zaib","orcid":null},"institutions":[{"id":"https://openalex.org/I111088046","display_name":"Boston University","ror":"https://ror.org/05qwgg493","country_code":"US","type":"education","lineage":["https://openalex.org/I111088046"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Syed Ali Zaib","raw_affiliation_strings":["Section of Computational Biomedicine, Boston University School of Medicine, Boston, MA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Section of Computational Biomedicine, Boston University School of Medicine, Boston, MA, USA","institution_ids":["https://openalex.org/I111088046"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5013274738","display_name":"Zhe Wang","orcid":"https://orcid.org/0000-0001-7071-3370"},"institutions":[{"id":"https://openalex.org/I111088046","display_name":"Boston University","ror":"https://ror.org/05qwgg493","country_code":"US","type":"education","lineage":["https://openalex.org/I111088046"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Zhe Wang","raw_affiliation_strings":["Bioinformatics Program, Boston University, Boston, MA, USA","Section of Computational Biomedicine, Boston University School of Medicine, Boston, MA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bioinformatics Program, Boston University, Boston, MA, USA","institution_ids":["https://openalex.org/I111088046"]},{"raw_affiliation_string":"Section of Computational Biomedicine, Boston University School of Medicine, Boston, MA, USA","institution_ids":["https://openalex.org/I111088046"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5065638255","display_name":"Frederick Jansen","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Frederick Jansen","raw_affiliation_strings":["Software & Application Innovation Lab, Rafik B. Hariri Institute for Computing and Computational Science and Engineering, Boston, MA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Software & Application Innovation Lab, Rafik B. Hariri Institute for Computing and Computational Science and Engineering, Boston, MA, USA","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5075614374","display_name":"Masanao Yajima","orcid":"https://orcid.org/0000-0002-7583-3707"},"institutions":[{"id":"https://openalex.org/I111088046","display_name":"Boston University","ror":"https://ror.org/05qwgg493","country_code":"US","type":"education","lineage":["https://openalex.org/I111088046"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Masanao Yajima","raw_affiliation_strings":["Department of Mathematics and Statistics, Boston University, Boston, MA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Mathematics and Statistics, Boston University, Boston, MA, USA","institution_ids":["https://openalex.org/I111088046"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5021633597","display_name":"W. Evan Johnson","orcid":"https://orcid.org/0000-0002-6247-6595"},"institutions":[{"id":"https://openalex.org/I111088046","display_name":"Boston University","ror":"https://ror.org/05qwgg493","country_code":"US","type":"education","lineage":["https://openalex.org/I111088046"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"W. Evan Johnson","raw_affiliation_strings":["Bioinformatics Program, Boston University, Boston, MA, USA","Section of Computational Biomedicine, Boston University School of Medicine, Boston, MA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bioinformatics Program, Boston University, Boston, MA, USA","institution_ids":["https://openalex.org/I111088046"]},{"raw_affiliation_string":"Section of Computational Biomedicine, Boston University School of Medicine, Boston, MA, USA","institution_ids":["https://openalex.org/I111088046"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5057597328","display_name":"Joshua D. Campbell","orcid":"https://orcid.org/0000-0003-0780-8662"},"institutions":[{"id":"https://openalex.org/I111088046","display_name":"Boston University","ror":"https://ror.org/05qwgg493","country_code":"US","type":"education","lineage":["https://openalex.org/I111088046"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Joshua D. Campbell","raw_affiliation_strings":["Bioinformatics Program, Boston University, Boston, MA, USA","Section of Computational Biomedicine, Boston University School of Medicine, Boston, MA, USA"],"raw_orcid":"https://orcid.org/0000-0003-0780-8662","affiliations":[{"raw_affiliation_string":"Bioinformatics Program, Boston University, Boston, MA, USA","institution_ids":["https://openalex.org/I111088046"]},{"raw_affiliation_string":"Section of Computational Biomedicine, Boston University School of Medicine, Boston, MA, USA","institution_ids":["https://openalex.org/I111088046"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":14,"corresponding_author_ids":["https://openalex.org/A5057597328"],"corresponding_institution_ids":["https://openalex.org/I111088046"],"apc_list":{"value":5200,"currency":"USD","value_usd":5200},"apc_paid":{"value":5200,"currency":"USD","value_usd":5200},"fwci":1.2684,"has_fulltext":true,"cited_by_count":9,"citation_normalized_percentile":{"value":0.80038646,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"4","issue":"8","first_page":"100814","last_page":"100814"},"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/T12859","display_name":"Cell Image Analysis Techniques","score":0.9790999889373779,"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9746999740600586,"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/workflow","display_name":"Workflow","score":0.8997009992599487},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8124330043792725},{"id":"https://openalex.org/keywords/variety","display_name":"Variety (cybernetics)","score":0.5985097289085388},{"id":"https://openalex.org/keywords/graphical-user-interface","display_name":"Graphical user interface","score":0.596221923828125},{"id":"https://openalex.org/keywords/interface","display_name":"Interface (matter)","score":0.47889676690101624},{"id":"https://openalex.org/keywords/data-type","display_name":"Data type","score":0.41651779413223267},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.2860923111438751},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.1760074496269226},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.15472528338432312},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.07688361406326294}],"concepts":[{"id":"https://openalex.org/C177212765","wikidata":"https://www.wikidata.org/wiki/Q627335","display_name":"Workflow","level":2,"score":0.8997009992599487},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8124330043792725},{"id":"https://openalex.org/C136197465","wikidata":"https://www.wikidata.org/wiki/Q1729295","display_name":"Variety (cybernetics)","level":2,"score":0.5985097289085388},{"id":"https://openalex.org/C37789001","wikidata":"https://www.wikidata.org/wiki/Q782543","display_name":"Graphical user interface","level":2,"score":0.596221923828125},{"id":"https://openalex.org/C113843644","wikidata":"https://www.wikidata.org/wiki/Q901882","display_name":"Interface (matter)","level":4,"score":0.47889676690101624},{"id":"https://openalex.org/C138958017","wikidata":"https://www.wikidata.org/wiki/Q190087","display_name":"Data type","level":2,"score":0.41651779413223267},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.2860923111438751},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.1760074496269226},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.15472528338432312},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.07688361406326294},{"id":"https://openalex.org/C157915830","wikidata":"https://www.wikidata.org/wiki/Q2928001","display_name":"Bubble","level":2,"score":0.0},{"id":"https://openalex.org/C129307140","wikidata":"https://www.wikidata.org/wiki/Q6795880","display_name":"Maximum bubble pressure method","level":3,"score":0.0}],"mesh":[],"locations_count":4,"locations":[{"id":"doi:10.1016/j.patter.2023.100814","is_oa":true,"landing_page_url":"https://doi.org/10.1016/j.patter.2023.100814","pdf_url":"http://www.cell.com/article/S2666389923001824/pdf","source":{"id":"https://openalex.org/S4210198061","display_name":"Patterns","issn_l":"2666-3899","issn":["2666-3899"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Patterns","raw_type":"journal-article"},{"id":"pmid:37602214","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/37602214","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":"Patterns (New York, N.Y.)","raw_type":null},{"id":"pmh:oai:null:2144/50150","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pubmed/37602214","pdf_url":null,"source":{"id":"https://openalex.org/S4306402384","display_name":"OpenBU (Boston University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I111088046","host_organization_name":"Boston University","host_organization_lineage":["https://openalex.org/I111088046"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":null,"raw_type":"Article"},{"id":"pmh:oai:pubmedcentral.nih.gov:10436054","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10436054","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10436054/pdf/main.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-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Patterns (N Y)","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1016/j.patter.2023.100814","is_oa":true,"landing_page_url":"https://doi.org/10.1016/j.patter.2023.100814","pdf_url":"http://www.cell.com/article/S2666389923001824/pdf","source":{"id":"https://openalex.org/S4210198061","display_name":"Patterns","issn_l":"2666-3899","issn":["2666-3899"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Patterns","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1995205755","display_name":null,"funder_award_id":"5R01GM127430","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"},{"id":"https://openalex.org/G2597222411","display_name":null,"funder_award_id":"R01 GM127430","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G314066069","display_name":null,"funder_award_id":"R01LM013154-01","funder_id":"https://openalex.org/F4320337372","funder_display_name":"U.S. National Library of Medicine"},{"id":"https://openalex.org/G6904430648","display_name":null,"funder_award_id":"U01 CA220413","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"},{"id":"https://openalex.org/G7198107007","display_name":null,"funder_award_id":"R01LM013154","funder_id":"https://openalex.org/F4320337372","funder_display_name":"U.S. National Library of Medicine"},{"id":"https://openalex.org/G8831542689","display_name":null,"funder_award_id":"1U01 CA220413-01","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"},{"id":"https://openalex.org/G884271173","display_name":null,"funder_award_id":"R01 LM013154","funder_id":"https://openalex.org/F4320337372","funder_display_name":"U.S. National Library of Medicine"}],"funders":[{"id":"https://openalex.org/F4320323280","display_name":"Instituto Tecnol\u00f3gico de Costa Rica","ror":"https://ror.org/04zhrfn38"},{"id":"https://openalex.org/F4320337351","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"},{"id":"https://openalex.org/F4320337372","display_name":"U.S. National Library of Medicine","ror":"https://ror.org/0060t0j89"}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4385547792.pdf"},"referenced_works_count":73,"referenced_works":["https://openalex.org/W1527927437","https://openalex.org/W1984689597","https://openalex.org/W2035479247","https://openalex.org/W2047940964","https://openalex.org/W2069089843","https://openalex.org/W2070050178","https://openalex.org/W2107665951","https://openalex.org/W2124209874","https://openalex.org/W2131681506","https://openalex.org/W2146512944","https://openalex.org/W2159482845","https://openalex.org/W2159707944","https://openalex.org/W2169353806","https://openalex.org/W2169456326","https://openalex.org/W2179438025","https://openalex.org/W2190545194","https://openalex.org/W2214074259","https://openalex.org/W2345356016","https://openalex.org/W2373831850","https://openalex.org/W2516455020","https://openalex.org/W2540833380","https://openalex.org/W2746479894","https://openalex.org/W2783644856","https://openalex.org/W2794480084","https://openalex.org/W2794521141","https://openalex.org/W2800392236","https://openalex.org/W2809616137","https://openalex.org/W2810097927","https://openalex.org/W2817838603","https://openalex.org/W2886347923","https://openalex.org/W2907514116","https://openalex.org/W2926010705","https://openalex.org/W2940256315","https://openalex.org/W2942108345","https://openalex.org/W2942880491","https://openalex.org/W2944073176","https://openalex.org/W2949177718","https://openalex.org/W2949637707","https://openalex.org/W2950519970","https://openalex.org/W2951158909","https://openalex.org/W2951506174","https://openalex.org/W2953068997","https://openalex.org/W2953151710","https://openalex.org/W2967177832","https://openalex.org/W2972480532","https://openalex.org/W2989807288","https://openalex.org/W3010280657","https://openalex.org/W3010766518","https://openalex.org/W3028851061","https://openalex.org/W3032090133","https://openalex.org/W3041112668","https://openalex.org/W3043250694","https://openalex.org/W3044388039","https://openalex.org/W3098929322","https://openalex.org/W3114078084","https://openalex.org/W3116514686","https://openalex.org/W3137597500","https://openalex.org/W3145635506","https://openalex.org/W3159756629","https://openalex.org/W3164692211","https://openalex.org/W3203240306","https://openalex.org/W4200538065","https://openalex.org/W4226031055","https://openalex.org/W4280619656","https://openalex.org/W4294216483","https://openalex.org/W4295530758","https://openalex.org/W6658883175","https://openalex.org/W6679686813","https://openalex.org/W6728888212","https://openalex.org/W6784827136","https://openalex.org/W6794302538","https://openalex.org/W6801676319","https://openalex.org/W6805023526"],"related_works":["https://openalex.org/W1981780420","https://openalex.org/W2182707996","https://openalex.org/W45233828","https://openalex.org/W2964988449","https://openalex.org/W2032233321","https://openalex.org/W3121970507","https://openalex.org/W2397952901","https://openalex.org/W2029380707","https://openalex.org/W2110028391","https://openalex.org/W2022968056"],"abstract_inverted_index":{"Analysis":[0],"of":[1,14,29,57,71,80,141],"single-cell":[2],"RNA":[3],"sequencing":[4],"(scRNA-seq)":[5],"data":[6,46,143],"can":[7,49,87,109],"reveal":[8],"novel":[9],"insights":[10],"into":[11],"the":[12,61,91,125],"heterogeneity":[13],"complex":[15],"biological":[16],"systems.":[17],"Many":[18],"tools":[19,33,73,84,134],"and":[20,48,74,85,114,135],"workflows":[21,75,86],"have":[22,67],"been":[23],"developed":[24],"to":[25,76,112],"perform":[26,77],"different":[27,37,44],"types":[28],"analyses.":[30],"However,":[31],"these":[32],"are":[34],"spread":[35],"across":[36],"packages":[38],"or":[39,94,118],"programming":[40,58],"environments,":[41],"rely":[42],"on":[43],"underlying":[45],"structures,":[47],"only":[50],"be":[51,88,110],"utilized":[52],"by":[53],"people":[54],"with":[55,102,107,132],"knowledge":[56],"languages.":[59],"In":[60],"Single-Cell":[62],"Toolkit":[63],"2":[64],"(SCTK2),":[65],"we":[66],"integrated":[68],"a":[69,138],"variety":[70],"popular":[72],"various":[78],"aspects":[79],"scRNA-seq":[81,142],"analysis.":[82],"All":[83],"run":[89],"in":[90],"R":[92],"console":[93],"using":[95],"an":[96],"intuitive":[97],"graphical":[98],"user":[99],"interface":[100],"built":[101],"R/Shiny.":[103],"HTML":[104],"reports":[105],"generated":[106],"Rmarkdown":[108],"used":[111],"document":[113],"recapitulate":[115],"individual":[116],"steps":[117],"entire":[119],"analysis":[120,140],"workflows.":[121],"We":[122],"show":[123],"that":[124],"toolkit":[126],"offers":[127],"more":[128],"features":[129],"when":[130],"compared":[131],"existing":[133],"allows":[136],"for":[137,144],"seamless":[139],"non-computational":[145],"users.":[146]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":1}],"updated_date":"2026-06-24T13:16:06.693445","created_date":"2025-10-10T00:00:00"}
