{"id":"https://openalex.org/W4391052321","doi":"https://doi.org/10.1093/bioinformatics/btae027","title":"<i>DESpace</i> : spatially variable gene detection via differential expression testing of spatial clusters","display_name":"<i>DESpace</i> : spatially variable gene detection via differential expression testing of spatial clusters","publication_year":2024,"publication_date":"2024-01-15","ids":{"openalex":"https://openalex.org/W4391052321","doi":"https://doi.org/10.1093/bioinformatics/btae027","pmid":"https://pubmed.ncbi.nlm.nih.gov/38243704"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btae027","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae027","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btae027/56254394/btae027.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","datacite","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btae027/56254394/btae027.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5015816792","display_name":"Peiying Cai","orcid":"https://orcid.org/0009-0001-9229-2244"},"institutions":[{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"nonprofit","lineage":["https://openalex.org/I12708293"]},{"id":"https://openalex.org/I202697423","display_name":"University of Zurich","ror":"https://ror.org/02crff812","country_code":"CH","type":"education","lineage":["https://openalex.org/I202697423"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Peiying Cai","raw_affiliation_strings":["Department of Molecular Life Sciences and Swiss Institute of Bioinformatics, University of Zurich , Zurich 8057, Switzerland","Department of Molecular Life Sciences and Swiss Institute of Bioinformatics, University of Zurich, Zurich, 8057, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular Life Sciences and Swiss Institute of Bioinformatics, University of Zurich , Zurich 8057, Switzerland","institution_ids":["https://openalex.org/I12708293"]},{"raw_affiliation_string":"Department of Molecular Life Sciences and Swiss Institute of Bioinformatics, University of Zurich, Zurich, 8057, Switzerland","institution_ids":["https://openalex.org/I12708293","https://openalex.org/I202697423"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5029455059","display_name":"Mark D. Robinson","orcid":"https://orcid.org/0000-0002-3048-5518"},"institutions":[{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"nonprofit","lineage":["https://openalex.org/I12708293"]},{"id":"https://openalex.org/I202697423","display_name":"University of Zurich","ror":"https://ror.org/02crff812","country_code":"CH","type":"education","lineage":["https://openalex.org/I202697423"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Mark D Robinson","raw_affiliation_strings":["Department of Molecular Life Sciences and Swiss Institute of Bioinformatics, University of Zurich , Zurich 8057, Switzerland","Department of Molecular Life Sciences and Swiss Institute of Bioinformatics, University of Zurich, Zurich, 8057, Switzerland"],"raw_orcid":"https://orcid.org/0000-0002-3048-5518","affiliations":[{"raw_affiliation_string":"Department of Molecular Life Sciences and Swiss Institute of Bioinformatics, University of Zurich , Zurich 8057, Switzerland","institution_ids":["https://openalex.org/I12708293"]},{"raw_affiliation_string":"Department of Molecular Life Sciences and Swiss Institute of Bioinformatics, University of Zurich, Zurich, 8057, Switzerland","institution_ids":["https://openalex.org/I12708293","https://openalex.org/I202697423"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5063657700","display_name":"Simone Tiberi","orcid":"https://orcid.org/0000-0002-3054-9964"},"institutions":[{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"nonprofit","lineage":["https://openalex.org/I12708293"]},{"id":"https://openalex.org/I202697423","display_name":"University of Zurich","ror":"https://ror.org/02crff812","country_code":"CH","type":"education","lineage":["https://openalex.org/I202697423"]},{"id":"https://openalex.org/I9360294","display_name":"University of Bologna","ror":"https://ror.org/01111rn36","country_code":"IT","type":"education","lineage":["https://openalex.org/I9360294"]}],"countries":["CH","IT"],"is_corresponding":true,"raw_author_name":"Simone Tiberi","raw_affiliation_strings":["Department of Molecular Life Sciences and Swiss Institute of Bioinformatics, University of Zurich , Zurich 8057, Switzerland","Department of Statistical Sciences, University of Bologna , Bologna 40126, Italy","Department of Statistical Sciences, University of Bologna, Bologna, 40126, Italy","Department of Molecular Life Sciences and Swiss Institute of Bioinformatics, University of Zurich, Zurich, 8057, Switzerland"],"raw_orcid":"https://orcid.org/0000-0002-3054-9964","affiliations":[{"raw_affiliation_string":"Department of Molecular Life Sciences and Swiss Institute of Bioinformatics, University of Zurich , Zurich 8057, Switzerland","institution_ids":["https://openalex.org/I12708293"]},{"raw_affiliation_string":"Department of Statistical Sciences, University of Bologna , Bologna 40126, Italy","institution_ids":["https://openalex.org/I9360294"]},{"raw_affiliation_string":"Department of Statistical Sciences, University of Bologna, Bologna, 40126, Italy","institution_ids":["https://openalex.org/I9360294"]},{"raw_affiliation_string":"Department of Molecular Life Sciences and Swiss Institute of Bioinformatics, University of Zurich, Zurich, 8057, Switzerland","institution_ids":["https://openalex.org/I12708293","https://openalex.org/I202697423"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5063657700"],"corresponding_institution_ids":["https://openalex.org/I12708293","https://openalex.org/I202697423","https://openalex.org/I9360294"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":3.0406,"has_fulltext":true,"cited_by_count":17,"citation_normalized_percentile":{"value":0.9167002,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":100},"biblio":{"volume":"40","issue":"2","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":0.9423999786376953,"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":0.9423999786376953,"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/T10885","display_name":"Gene expression and cancer classification","score":0.03970000147819519,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.003100000089034438,"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/bioconductor","display_name":"Bioconductor","score":0.9007928371429443},{"id":"https://openalex.org/keywords/inference","display_name":"Inference","score":0.6334862112998962},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.5933375358581543},{"id":"https://openalex.org/keywords/spatial-analysis","display_name":"Spatial analysis","score":0.5528528094291687},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5509554147720337},{"id":"https://openalex.org/keywords/false-discovery-rate","display_name":"False discovery rate","score":0.524160623550415},{"id":"https://openalex.org/keywords/variable","display_name":"Variable (mathematics)","score":0.48083528876304626},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.4475906789302826},{"id":"https://openalex.org/keywords/statistical-hypothesis-testing","display_name":"Statistical hypothesis testing","score":0.41812974214553833},{"id":"https://openalex.org/keywords/multiple-comparisons-problem","display_name":"Multiple comparisons problem","score":0.41091302037239075},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4083961248397827},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3012448251247406},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.2250400185585022},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.2236279547214508},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.21924754977226257},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.16443663835525513},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.12572291493415833}],"concepts":[{"id":"https://openalex.org/C2779694297","wikidata":"https://www.wikidata.org/wiki/Q2888953","display_name":"Bioconductor","level":3,"score":0.9007928371429443},{"id":"https://openalex.org/C2776214188","wikidata":"https://www.wikidata.org/wiki/Q408386","display_name":"Inference","level":2,"score":0.6334862112998962},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.5933375358581543},{"id":"https://openalex.org/C159620131","wikidata":"https://www.wikidata.org/wiki/Q1938983","display_name":"Spatial analysis","level":2,"score":0.5528528094291687},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5509554147720337},{"id":"https://openalex.org/C193244246","wikidata":"https://www.wikidata.org/wiki/Q5432696","display_name":"False discovery rate","level":3,"score":0.524160623550415},{"id":"https://openalex.org/C182365436","wikidata":"https://www.wikidata.org/wiki/Q50701","display_name":"Variable (mathematics)","level":2,"score":0.48083528876304626},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4475906789302826},{"id":"https://openalex.org/C87007009","wikidata":"https://www.wikidata.org/wiki/Q210832","display_name":"Statistical hypothesis testing","level":2,"score":0.41812974214553833},{"id":"https://openalex.org/C183905921","wikidata":"https://www.wikidata.org/wiki/Q1038757","display_name":"Multiple comparisons problem","level":2,"score":0.41091302037239075},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4083961248397827},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3012448251247406},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.2250400185585022},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.2236279547214508},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.21924754977226257},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.16443663835525513},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.12572291493415833},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0}],"mesh":[{"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":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019985","descriptor_name":"Benchmarking","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019985","descriptor_name":"Benchmarking","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019985","descriptor_name":"Benchmarking","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019985","descriptor_name":"Benchmarking","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"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":"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":"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":false},{"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":false},{"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":false}],"locations_count":6,"locations":[{"id":"doi:10.1093/bioinformatics/btae027","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae027","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btae027/56254394/btae027.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:38243704","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/38243704","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:www.zora.uzh.ch:254775","is_oa":true,"landing_page_url":"https://www.zora.uzh.ch/id/eprint/254775/11/ZORA254775.pdf","pdf_url":null,"source":{"id":"https://openalex.org/S4306401281","display_name":"Zurich Open Repository and Archive (University of Zurich)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I202697423","host_organization_name":"University of Zurich","host_organization_lineage":["https://openalex.org/I202697423"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"Cai, Peiying; Robinson, Mark D; Tiberi, Simone  (2024). DESpace: spatially variable gene detection via differential expression testing of spatial clusters.  Bioinformatics, 40(2):btae027.","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:cris.unibo.it:11585/952444","is_oa":true,"landing_page_url":"https://hdl.handle.net/11585/952444","pdf_url":"https://cris.unibo.it/bitstream/11585/952444/3/DESpace.pdf","source":{"id":"https://openalex.org/S4306402579","display_name":"Archivio istituzionale della ricerca (Alma Mater Studiorum Universit\u00e0 di Bologna)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210117483","host_organization_name":"Istituto di Ematologia di Bologna","host_organization_lineage":["https://openalex.org/I4210117483"],"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":null,"raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:pubmedcentral.nih.gov:10868334","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10868334","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10868334/pdf/btae027.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","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"},{"id":"doi:10.5167/uzh-254775","is_oa":true,"landing_page_url":"https://doi.org/10.5167/uzh-254775","pdf_url":null,"source":{"id":"https://openalex.org/S7407051291","display_name":"Universit\u00e4t Z\u00fcrich, ZORA","issn_l":null,"issn":[],"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"JournalArticle"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btae027","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae027","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btae027/56254394/btae027.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/G2940573464","display_name":"Beyond the average: computational tools for discovery in high-throughput single cell datasets","funder_award_id":"175841","funder_id":"https://openalex.org/F4320320924","funder_display_name":"Schweizerischer Nationalfonds zur F\u00f6rderung der Wissenschaftlichen Forschung"},{"id":"https://openalex.org/G3345296209","display_name":null,"funder_award_id":"310030_204869","funder_id":"https://openalex.org/F4320320924","funder_display_name":"Schweizerischer Nationalfonds zur F\u00f6rderung der Wissenschaftlichen Forschung"},{"id":"https://openalex.org/G5200714695","display_name":null,"funder_award_id":"310030_175841","funder_id":"https://openalex.org/F4320320924","funder_display_name":"Schweizerischer Nationalfonds zur F\u00f6rderung der Wissenschaftlichen Forschung"},{"id":"https://openalex.org/G8690818240","display_name":null,"funder_award_id":"310030","funder_id":"https://openalex.org/F4320320924","funder_display_name":"Schweizerischer Nationalfonds zur F\u00f6rderung der Wissenschaftlichen Forschung"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320320924","display_name":"Schweizerischer Nationalfonds zur F\u00f6rderung der Wissenschaftlichen Forschung","ror":"https://ror.org/00yjd3n13"}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4391052321.pdf"},"referenced_works_count":45,"referenced_works":["https://openalex.org/W1986553481","https://openalex.org/W2019841176","https://openalex.org/W2042789810","https://openalex.org/W2069089843","https://openalex.org/W2107018762","https://openalex.org/W2114104545","https://openalex.org/W2126537932","https://openalex.org/W2130116522","https://openalex.org/W2146512944","https://openalex.org/W2179438025","https://openalex.org/W2466314544","https://openalex.org/W2471536144","https://openalex.org/W2516455020","https://openalex.org/W2533012945","https://openalex.org/W2540833380","https://openalex.org/W2790675139","https://openalex.org/W2889453805","https://openalex.org/W2915848182","https://openalex.org/W2923300855","https://openalex.org/W2953036966","https://openalex.org/W2972983657","https://openalex.org/W3001833132","https://openalex.org/W3108118546","https://openalex.org/W3112563877","https://openalex.org/W3126958162","https://openalex.org/W3129476455","https://openalex.org/W3134482219","https://openalex.org/W3165120573","https://openalex.org/W3165827221","https://openalex.org/W3173845757","https://openalex.org/W3173882906","https://openalex.org/W3190202966","https://openalex.org/W3212135550","https://openalex.org/W4225678977","https://openalex.org/W4229033508","https://openalex.org/W4241872665","https://openalex.org/W4280631255","https://openalex.org/W4281716652","https://openalex.org/W4317215046","https://openalex.org/W4383820766","https://openalex.org/W4388997570","https://openalex.org/W6719957963","https://openalex.org/W6728888212","https://openalex.org/W6772461537","https://openalex.org/W6804145475"],"related_works":["https://openalex.org/W154531455","https://openalex.org/W2088387197","https://openalex.org/W1976797354","https://openalex.org/W3174861742","https://openalex.org/W1995992573","https://openalex.org/W3008469829","https://openalex.org/W2278145554","https://openalex.org/W3000705684","https://openalex.org/W2058846847","https://openalex.org/W1975978539"],"abstract_inverted_index":{"MOTIVATION:":[0],"Spatially":[1],"resolved":[2],"transcriptomics":[3],"(SRT)":[4],"enables":[5,136],"scientists":[6,123],"to":[7,72,124,146],"investigate":[8,125],"spatial":[9,55,86,89,119,126,162],"context":[10],"of":[11,50,69,82,114,132,139],"mRNA":[12],"abundance,":[13],"including":[14],"identifying":[15],"spatially":[16,93],"variable":[17,94],"genes":[18,21,95],"(SVGs),":[19],"i.e.":[20],"whose":[22],"expression":[23,100,127],"varies":[24],"across":[25,164],"the":[26,47,51,111,115],"tissue.":[27],"Although":[28],"several":[29],"methods":[30],"have":[31],"been":[32],"proposed":[33],"for":[34,177],"this":[35,121,152],"task,":[36],"native":[37],"SVG":[38],"tools":[39],"cannot":[40],"jointly":[41],"model":[42],"biological":[43,143],"replicates,":[44],"or":[45],"identify":[46,108],"key":[48],"areas":[49,131],"tissue":[52,116],"affected":[53,117],"by":[54,96,118],"variability.":[56],"RESULTS:":[57],"Here,":[58],"we":[59],"introduce":[60],"DESpace,":[61],"a":[62,196],"framework,":[63],"based":[64,148],"on":[65,149],"an":[66],"original":[67],"application":[68],"existing":[70],"methods,":[71],"discover":[73],"SVGs.":[74],"In":[75],"particular,":[76],"our":[77,105,168],"approach":[78,153],"inputs":[79],"all":[80],"types":[81],"SRT":[83],"data,":[84],"summarizes":[85],"information":[87],"via":[88],"clusters,":[90],"and":[91,157,180,184],"identifies":[92],"performing":[97],"differential":[98],"gene":[99],"testing":[101],"between":[102],"clusters.":[103],"Furthermore,":[104],"framework":[106],"can":[107],"(and":[109],"test)":[110],"main":[112],"cluster":[113],"variability;":[120],"allows":[122],"changes":[128],"in":[129,167],"specific":[130],"interest.":[133],"Additionally,":[134],"DESpace":[135,170,191],"joint":[137],"modeling":[138],"multiple":[140],"samples":[141],"(i.e.":[142],"replicates);":[144],"compared":[145],"inference":[147],"individual":[150],"samples,":[151],"increases":[154],"statistical":[155],"power,":[156],"targets":[158],"SVGs":[159],"with":[160],"consistent":[161],"patterns":[163],"replicates.":[165],"Overall,":[166],"benchmarks,":[169],"displays":[171],"good":[172],"true":[173],"positive":[174,179],"rates,":[175,183],"controls":[176],"false":[178,181],"discovery":[182],"is":[185,192],"computationally":[186],"efficient.":[187],"AVAILABILITY":[188],"AND":[189],"IMPLEMENTATION:":[190],"freely":[193],"distributed":[194],"as":[195],"Bioconductor":[197],"R":[198],"package":[199],"at":[200],"https://bioconductor.org/packages/DESpace.":[201]},"counts_by_year":[{"year":2026,"cited_by_count":9},{"year":2025,"cited_by_count":6},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":1}],"updated_date":"2026-07-02T09:51:11.867554","created_date":"2024-01-21T00:00:00"}
