{"id":"https://openalex.org/W4408212560","doi":"https://doi.org/10.1093/bioinformatics/btaf094","title":"ENACT: End-to-End Analysis of Visium High Definition (HD) Data","display_name":"ENACT: End-to-End Analysis of Visium High Definition (HD) Data","publication_year":2025,"publication_date":"2025-02-25","ids":{"openalex":"https://openalex.org/W4408212560","doi":"https://doi.org/10.1093/bioinformatics/btaf094","pmid":"https://pubmed.ncbi.nlm.nih.gov/40053700"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btaf094","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaf094","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btaf094/62340410/btaf094.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/btaf094/62340410/btaf094.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5103153680","display_name":"Mena Kamel","orcid":"https://orcid.org/0009-0007-1380-6950"},"institutions":[{"id":"https://openalex.org/I3018075036","display_name":"Sanofi (France)","ror":"https://ror.org/02n6c9837","country_code":"FR","type":"company","lineage":["https://openalex.org/I3018075036"]},{"id":"https://openalex.org/I4210104304","display_name":"Sanofi (Canada)","ror":"https://ror.org/01aptcd74","country_code":"CA","type":"company","lineage":["https://openalex.org/I3018075036","https://openalex.org/I4210104304"]}],"countries":["CA","FR"],"is_corresponding":true,"raw_author_name":"Mena Kamel","raw_affiliation_strings":["Digital R&D, Sanofi , Toronto, ON M5V 1V6,","Digital R&D, Sanofi, Toronto, ON Canada"],"raw_orcid":"https://orcid.org/0009-0007-1380-6950","affiliations":[{"raw_affiliation_string":"Digital R&D, Sanofi , Toronto, ON M5V 1V6,","institution_ids":["https://openalex.org/I3018075036"]},{"raw_affiliation_string":"Digital R&D, Sanofi, Toronto, ON Canada","institution_ids":["https://openalex.org/I4210104304"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Yiwen Song","orcid":null},"institutions":[{"id":"https://openalex.org/I3018075036","display_name":"Sanofi (France)","ror":"https://ror.org/02n6c9837","country_code":"FR","type":"company","lineage":["https://openalex.org/I3018075036"]},{"id":"https://openalex.org/I4210104304","display_name":"Sanofi (Canada)","ror":"https://ror.org/01aptcd74","country_code":"CA","type":"company","lineage":["https://openalex.org/I3018075036","https://openalex.org/I4210104304"]}],"countries":["CA","FR"],"is_corresponding":false,"raw_author_name":"Yiwen Song","raw_affiliation_strings":["Digital R&D, Sanofi , Toronto, ON M5V 1V6,","Digital R&D, Sanofi, Toronto, ON Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Digital R&D, Sanofi , Toronto, ON M5V 1V6,","institution_ids":["https://openalex.org/I3018075036"]},{"raw_affiliation_string":"Digital R&D, Sanofi, Toronto, ON Canada","institution_ids":["https://openalex.org/I4210104304"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5106598201","display_name":"Ana Solbas","orcid":null},"institutions":[{"id":"https://openalex.org/I4210093939","display_name":"Sanofi (Spain)","ror":"https://ror.org/00g51ew42","country_code":"ES","type":"company","lineage":["https://openalex.org/I3018075036","https://openalex.org/I4210093939"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Ana Solbas","raw_affiliation_strings":["Digital R&D, Sanofi , Barcelona 08016,","Digital R&D, Sanofi, Barcelona, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Digital R&D, Sanofi , Barcelona 08016,","institution_ids":["https://openalex.org/I4210093939"]},{"raw_affiliation_string":"Digital R&D, Sanofi, Barcelona, Spain","institution_ids":["https://openalex.org/I4210093939"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5035725536","display_name":"Sergio M. Villordo","orcid":"https://orcid.org/0000-0003-4434-7930"},"institutions":[{"id":"https://openalex.org/I4210093939","display_name":"Sanofi (Spain)","ror":"https://ror.org/00g51ew42","country_code":"ES","type":"company","lineage":["https://openalex.org/I3018075036","https://openalex.org/I4210093939"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Sergio Villordo","raw_affiliation_strings":["Digital R&D, Sanofi , Barcelona 08016,","Digital R&D, Sanofi, Barcelona, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Digital R&D, Sanofi , Barcelona 08016,","institution_ids":["https://openalex.org/I4210093939"]},{"raw_affiliation_string":"Digital R&D, Sanofi, Barcelona, Spain","institution_ids":["https://openalex.org/I4210093939"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5000589157","display_name":"Amrut Sarangi","orcid":"https://orcid.org/0009-0008-9510-7834"},"institutions":[{"id":"https://openalex.org/I3018075036","display_name":"Sanofi (France)","ror":"https://ror.org/02n6c9837","country_code":"FR","type":"company","lineage":["https://openalex.org/I3018075036"]},{"id":"https://openalex.org/I4210104304","display_name":"Sanofi (Canada)","ror":"https://ror.org/01aptcd74","country_code":"CA","type":"company","lineage":["https://openalex.org/I3018075036","https://openalex.org/I4210104304"]}],"countries":["CA","FR"],"is_corresponding":false,"raw_author_name":"Amrut Sarangi","raw_affiliation_strings":["Digital R&D, Sanofi , Toronto, ON M5V 1V6,","Digital R&D, Sanofi, Toronto, ON Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Digital R&D, Sanofi , Toronto, ON M5V 1V6,","institution_ids":["https://openalex.org/I3018075036"]},{"raw_affiliation_string":"Digital R&D, Sanofi, Toronto, ON Canada","institution_ids":["https://openalex.org/I4210104304"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5036648192","display_name":"Pavel Senin","orcid":"https://orcid.org/0000-0001-5517-7768"},"institutions":[{"id":"https://openalex.org/I3018075036","display_name":"Sanofi (France)","ror":"https://ror.org/02n6c9837","country_code":"FR","type":"company","lineage":["https://openalex.org/I3018075036"]},{"id":"https://openalex.org/I4210104304","display_name":"Sanofi (Canada)","ror":"https://ror.org/01aptcd74","country_code":"CA","type":"company","lineage":["https://openalex.org/I3018075036","https://openalex.org/I4210104304"]}],"countries":["CA","FR"],"is_corresponding":false,"raw_author_name":"Pavel Senin","raw_affiliation_strings":["Digital R&D, Sanofi , Toronto, ON M5V 1V6,","Digital R&D, Sanofi, Toronto, ON Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Digital R&D, Sanofi , Toronto, ON M5V 1V6,","institution_ids":["https://openalex.org/I3018075036"]},{"raw_affiliation_string":"Digital R&D, Sanofi, Toronto, ON Canada","institution_ids":["https://openalex.org/I4210104304"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5106598200","display_name":"Mathew Sunaal","orcid":null},"institutions":[{"id":"https://openalex.org/I3018075036","display_name":"Sanofi (France)","ror":"https://ror.org/02n6c9837","country_code":"FR","type":"company","lineage":["https://openalex.org/I3018075036"]},{"id":"https://openalex.org/I4210104304","display_name":"Sanofi (Canada)","ror":"https://ror.org/01aptcd74","country_code":"CA","type":"company","lineage":["https://openalex.org/I3018075036","https://openalex.org/I4210104304"]}],"countries":["CA","FR"],"is_corresponding":false,"raw_author_name":"Mathew Sunaal","raw_affiliation_strings":["Digital R&D, Sanofi , Toronto, ON M5V 1V6,","Digital R&D, Sanofi, Toronto, ON Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Digital R&D, Sanofi , Toronto, ON M5V 1V6,","institution_ids":["https://openalex.org/I3018075036"]},{"raw_affiliation_string":"Digital R&D, Sanofi, Toronto, ON Canada","institution_ids":["https://openalex.org/I4210104304"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5114335705","display_name":"Luis Cano Ayestas","orcid":null},"institutions":[{"id":"https://openalex.org/I3018075036","display_name":"Sanofi (France)","ror":"https://ror.org/02n6c9837","country_code":"FR","type":"company","lineage":["https://openalex.org/I3018075036"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Luis Cano Ayestas","raw_affiliation_strings":["Precision Medicine & Computational Biology, Sanofi , Paris 94400,","Precision Medicine & Computational Biology, Sanofi, Paris, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Precision Medicine & Computational Biology, Sanofi , Paris 94400,","institution_ids":["https://openalex.org/I3018075036"]},{"raw_affiliation_string":"Precision Medicine & Computational Biology, Sanofi, Paris, France","institution_ids":["https://openalex.org/I3018075036"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068291054","display_name":"Cl\u00e9ment Levin","orcid":null},"institutions":[{"id":"https://openalex.org/I3018075036","display_name":"Sanofi (France)","ror":"https://ror.org/02n6c9837","country_code":"FR","type":"company","lineage":["https://openalex.org/I3018075036"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Clement Levin","raw_affiliation_strings":["Precision Medicine & Computational Biology, Sanofi , Paris 94400,","Precision Medicine & Computational Biology, Sanofi, Paris, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Precision Medicine & Computational Biology, Sanofi , Paris 94400,","institution_ids":["https://openalex.org/I3018075036"]},{"raw_affiliation_string":"Precision Medicine & Computational Biology, Sanofi, Paris, France","institution_ids":["https://openalex.org/I3018075036"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5059920021","display_name":"Seqian Wang","orcid":null},"institutions":[{"id":"https://openalex.org/I3018075036","display_name":"Sanofi (France)","ror":"https://ror.org/02n6c9837","country_code":"FR","type":"company","lineage":["https://openalex.org/I3018075036"]},{"id":"https://openalex.org/I4210104304","display_name":"Sanofi (Canada)","ror":"https://ror.org/01aptcd74","country_code":"CA","type":"company","lineage":["https://openalex.org/I3018075036","https://openalex.org/I4210104304"]}],"countries":["CA","FR"],"is_corresponding":false,"raw_author_name":"Seqian Wang","raw_affiliation_strings":["Digital R&D, Sanofi , Toronto, ON M5V 1V6,","Digital R&D, Sanofi, Toronto, ON Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Digital R&D, Sanofi , Toronto, ON M5V 1V6,","institution_ids":["https://openalex.org/I3018075036"]},{"raw_affiliation_string":"Digital R&D, Sanofi, Toronto, ON Canada","institution_ids":["https://openalex.org/I4210104304"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076472816","display_name":"Marion Classe","orcid":"https://orcid.org/0000-0002-0802-6585"},"institutions":[{"id":"https://openalex.org/I3018075036","display_name":"Sanofi (France)","ror":"https://ror.org/02n6c9837","country_code":"FR","type":"company","lineage":["https://openalex.org/I3018075036"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Marion Classe","raw_affiliation_strings":["Precision Medicine & Computational Biology, Sanofi , Paris 94400,","Precision Medicine & Computational Biology, Sanofi, Paris, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Precision Medicine & Computational Biology, Sanofi , Paris 94400,","institution_ids":["https://openalex.org/I3018075036"]},{"raw_affiliation_string":"Precision Medicine & Computational Biology, Sanofi, Paris, France","institution_ids":["https://openalex.org/I3018075036"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5065673127","display_name":"Ziv Bar\u2010Joseph","orcid":"https://orcid.org/0000-0003-3430-6051"},"institutions":[{"id":"https://openalex.org/I4210110242","display_name":"Digital Science (United States)","ror":"https://ror.org/020h4b682","country_code":"US","type":"company","lineage":["https://openalex.org/I4210110242","https://openalex.org/I4210112888","https://openalex.org/I4210118830"]},{"id":"https://openalex.org/I4210111804","display_name":"Sanofi (United States)","ror":"https://ror.org/027vj4x92","country_code":"US","type":"company","lineage":["https://openalex.org/I3018075036","https://openalex.org/I4210111804"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ziv Bar-Joseph","raw_affiliation_strings":["Digital R&D, Sanofi , Cambridge, MA 02141,","Digital R&D, Sanofi, Cambridge, MA United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Digital R&D, Sanofi , Cambridge, MA 02141,","institution_ids":["https://openalex.org/I4210110242"]},{"raw_affiliation_string":"Digital R&D, Sanofi, Cambridge, MA United States","institution_ids":["https://openalex.org/I4210111804"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5047538223","display_name":"Albert Pl\u00e0","orcid":"https://orcid.org/0000-0001-7527-2500"},"institutions":[{"id":"https://openalex.org/I4210093939","display_name":"Sanofi (Spain)","ror":"https://ror.org/00g51ew42","country_code":"ES","type":"company","lineage":["https://openalex.org/I3018075036","https://openalex.org/I4210093939"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Albert Pla Planas","raw_affiliation_strings":["Digital R&D, Sanofi , Barcelona 08016,","Digital R&D, Sanofi, Barcelona, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Digital R&D, Sanofi , Barcelona 08016,","institution_ids":["https://openalex.org/I4210093939"]},{"raw_affiliation_string":"Digital R&D, Sanofi, Barcelona, Spain","institution_ids":["https://openalex.org/I4210093939"]}]}],"institutions":[],"countries_distinct_count":4,"institutions_distinct_count":13,"corresponding_author_ids":["https://openalex.org/A5103153680"],"corresponding_institution_ids":["https://openalex.org/I3018075036","https://openalex.org/I4210104304"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":7.725,"has_fulltext":false,"cited_by_count":13,"citation_normalized_percentile":{"value":0.9772248,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":99,"max":100},"biblio":{"volume":"41","issue":"3","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":0.998199999332428,"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":0.998199999332428,"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":0.000699999975040555,"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":9.999999747378752e-05,"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/end-to-end-principle","display_name":"End-to-end principle","score":0.841792643070221},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6363696455955505},{"id":"https://openalex.org/keywords/end-user","display_name":"End user","score":0.5175241827964783},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.20519492030143738},{"id":"https://openalex.org/keywords/computer-network","display_name":"Computer network","score":0.12322857975959778}],"concepts":[{"id":"https://openalex.org/C74296488","wikidata":"https://www.wikidata.org/wiki/Q2527392","display_name":"End-to-end principle","level":2,"score":0.841792643070221},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6363696455955505},{"id":"https://openalex.org/C91262260","wikidata":"https://www.wikidata.org/wiki/Q528074","display_name":"End user","level":2,"score":0.5175241827964783},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.20519492030143738},{"id":"https://openalex.org/C31258907","wikidata":"https://www.wikidata.org/wiki/Q1301371","display_name":"Computer network","level":1,"score":0.12322857975959778}],"mesh":[{"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":"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":"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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"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":true},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btaf094","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaf094","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btaf094/62340410/btaf094.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:40053700","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40053700","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:11925495","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11925495","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btaf094","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaf094","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btaf094/62340410/btaf094.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":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W4408212560.pdf"},"referenced_works_count":10,"referenced_works":["https://openalex.org/W2894232765","https://openalex.org/W2895456557","https://openalex.org/W2973034691","https://openalex.org/W4210583065","https://openalex.org/W4280596398","https://openalex.org/W4322504892","https://openalex.org/W4366977935","https://openalex.org/W4385760022","https://openalex.org/W4389938094","https://openalex.org/W6870625754"],"related_works":["https://openalex.org/W4299590256","https://openalex.org/W2151749779","https://openalex.org/W3163634122","https://openalex.org/W2110442089","https://openalex.org/W2166381389","https://openalex.org/W4315785295","https://openalex.org/W4393280045","https://openalex.org/W2054736184","https://openalex.org/W3159728998","https://openalex.org/W2677083173"],"abstract_inverted_index":{"MOTIVATION:":[0],"Spatial":[1],"transcriptomics":[2,85,138],"(ST)":[3],"enables":[4],"the":[5,24,34,41,52,67,103],"study":[6],"of":[7,26,33,105,125,127],"gene":[8],"expression":[9],"within":[10],"its":[11],"spatial":[12],"context":[13],"in":[14,51,61],"histopathology":[15],"samples.":[16],"To":[17],"date,":[18],"a":[19,74,132],"limiting":[20],"factor":[21],"has":[22],"been":[23],"resolution":[25,45],"sequencing":[27],"based":[28,65],"ST":[29,46],"products.":[30],"The":[31],"introduction":[32],"Visium":[35,83],"High":[36],"Definition":[37],"(HD)":[38],"technology":[39],"opens":[40],"door":[42],"to":[43,54,58,87,121],"cell":[44,63,80,89],"studies.":[47],"However,":[48],"challenges":[49],"remain":[50],"ability":[53],"accurately":[55],"map":[56],"transcripts":[57],"cells":[59,128],"and":[60,113,129],"assigning":[62],"types":[64,90],"on":[66,110],"transcript":[68,107],"data.":[69],"RESULTS:":[70],"We":[71],"developed":[72],"ENACT,":[73],"self-contained":[75],"pipeline":[76,96],"that":[77],"integrates":[78],"advanced":[79],"segmentation":[81],"with":[82,123],"HD":[84],"data":[86,151],"infer":[88],"across":[91],"whole":[92],"tissue":[93],"sections.":[94],"Our":[95],"incorporates":[97],"novel":[98],"bin-to-cell":[99],"assignment":[100],"methods,":[101],"enhancing":[102],"accuracy":[104],"single-cell":[106],"estimates.":[108],"Validated":[109],"diverse":[111],"synthetic":[112],"real":[114],"datasets,":[115],"our":[116],"approach":[117],"is":[118,146],"both":[119],"scalable":[120],"samples":[122],"hundreds":[124],"thousands":[126],"effective,":[130],"offering":[131],"robust":[133],"solution":[134],"for":[135],"spatially":[136],"resolved":[137],"analysis.":[139],"AVAILABILITY":[140],"AND":[141],"IMPLEMENTATION:":[142],"ENACT":[143],"source":[144],"code":[145],"available":[147,153],"at":[148,154],"https://github.com/Sanofi-Public/enact-pipeline.":[149],"Experimental":[150],"are":[152],"https://zenodo.org/records/14748859.":[155]},"counts_by_year":[{"year":2026,"cited_by_count":6},{"year":2025,"cited_by_count":7}],"updated_date":"2026-06-04T09:04:59.091469","created_date":"2025-10-10T00:00:00"}
