{"id":"https://openalex.org/W4379598914","doi":"https://doi.org/10.1093/bioinformatics/btad366","title":"JUMP: replicability analysis of high-throughput experiments with applications to spatial transcriptomic studies","display_name":"JUMP: replicability analysis of high-throughput experiments with applications to spatial transcriptomic studies","publication_year":2023,"publication_date":"2023-06-01","ids":{"openalex":"https://openalex.org/W4379598914","doi":"https://doi.org/10.1093/bioinformatics/btad366","pmid":"https://pubmed.ncbi.nlm.nih.gov/37279733"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btad366","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btad366","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/39/6/btad366/50647328/btad366.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/article-pdf/39/6/btad366/50647328/btad366.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5102007264","display_name":"Pengfei Lyu","orcid":"https://orcid.org/0000-0003-3313-8607"},"institutions":[{"id":"https://openalex.org/I103163165","display_name":"Florida State University","ror":"https://ror.org/05g3dte14","country_code":"US","type":"education","lineage":["https://openalex.org/I103163165"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Pengfei Lyu","raw_affiliation_strings":["Department of Statistics, Florida State University , 600 W College AVE , Tallahassee, FL 32306, United States"],"affiliations":[{"raw_affiliation_string":"Department of Statistics, Florida State University , 600 W College AVE , Tallahassee, FL 32306, United States","institution_ids":["https://openalex.org/I103163165"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100380305","display_name":"Yan Li","orcid":"https://orcid.org/0000-0002-1612-5719"},"institutions":[{"id":"https://openalex.org/I194450716","display_name":"Jilin University","ror":"https://ror.org/00js3aw79","country_code":"CN","type":"education","lineage":["https://openalex.org/I194450716"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yan Li","raw_affiliation_strings":["School of Mathematics, Jilin University , 2699 Qianjin ST , Changchun, Jilin 130012, China"],"affiliations":[{"raw_affiliation_string":"School of Mathematics, Jilin University , 2699 Qianjin ST , Changchun, Jilin 130012, China","institution_ids":["https://openalex.org/I194450716"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5089187929","display_name":"Xiaoquan Wen","orcid":"https://orcid.org/0000-0001-8990-2737"},"institutions":[{"id":"https://openalex.org/I27837315","display_name":"University of Michigan","ror":"https://ror.org/00jmfr291","country_code":"US","type":"education","lineage":["https://openalex.org/I27837315"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Xiaoquan Wen","raw_affiliation_strings":["Department of Biostatistics, University of Michigan , Ann Arbor, MI 48109, United States"],"affiliations":[{"raw_affiliation_string":"Department of Biostatistics, University of Michigan , Ann Arbor, MI 48109, United States","institution_ids":["https://openalex.org/I27837315"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5037685556","display_name":"Hongyuan Cao","orcid":"https://orcid.org/0000-0001-5752-732X"},"institutions":[{"id":"https://openalex.org/I103163165","display_name":"Florida State University","ror":"https://ror.org/05g3dte14","country_code":"US","type":"education","lineage":["https://openalex.org/I103163165"]},{"id":"https://openalex.org/I194450716","display_name":"Jilin University","ror":"https://ror.org/00js3aw79","country_code":"CN","type":"education","lineage":["https://openalex.org/I194450716"]}],"countries":["CN","US"],"is_corresponding":false,"raw_author_name":"Hongyuan Cao","raw_affiliation_strings":["Department of Statistics, Florida State University , 600 W College AVE , Tallahassee, FL 32306, United States","School of Mathematics, Jilin University , 2699 Qianjin ST , Changchun, Jilin 130012, China"],"affiliations":[{"raw_affiliation_string":"Department of Statistics, Florida State University , 600 W College AVE , Tallahassee, FL 32306, United States","institution_ids":["https://openalex.org/I103163165"]},{"raw_affiliation_string":"School of Mathematics, Jilin University , 2699 Qianjin ST , Changchun, Jilin 130012, China","institution_ids":["https://openalex.org/I194450716"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5102007264"],"corresponding_institution_ids":["https://openalex.org/I103163165"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.9053,"has_fulltext":true,"cited_by_count":5,"citation_normalized_percentile":{"value":0.7477916,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":97},"biblio":{"volume":"39","issue":"6","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.9945999979972839,"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/T10885","display_name":"Gene expression and cancer classification","score":0.9945999979972839,"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/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9940000176429749,"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":0.9894999861717224,"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/false-discovery-rate","display_name":"False discovery rate","score":0.7498104572296143},{"id":"https://openalex.org/keywords/jump","display_name":"Jump","score":0.691530704498291},{"id":"https://openalex.org/keywords/cornerstone","display_name":"Cornerstone","score":0.6852326393127441},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.620928943157196},{"id":"https://openalex.org/keywords/throughput","display_name":"Throughput","score":0.5516685247421265},{"id":"https://openalex.org/keywords/multiple-comparisons-problem","display_name":"Multiple comparisons problem","score":0.5099490880966187},{"id":"https://openalex.org/keywords/statistical-analysis","display_name":"Statistical analysis","score":0.48057103157043457},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4370882213115692},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.4098125696182251},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.3166481852531433},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.23369935154914856},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.16513794660568237},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.08161747455596924},{"id":"https://openalex.org/keywords/telecommunications","display_name":"Telecommunications","score":0.06957364082336426},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.0639144778251648},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.06056088209152222}],"concepts":[{"id":"https://openalex.org/C193244246","wikidata":"https://www.wikidata.org/wiki/Q5432696","display_name":"False discovery rate","level":3,"score":0.7498104572296143},{"id":"https://openalex.org/C2780695682","wikidata":"https://www.wikidata.org/wiki/Q4005959","display_name":"Jump","level":2,"score":0.691530704498291},{"id":"https://openalex.org/C2780616401","wikidata":"https://www.wikidata.org/wiki/Q1133673","display_name":"Cornerstone","level":2,"score":0.6852326393127441},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.620928943157196},{"id":"https://openalex.org/C157764524","wikidata":"https://www.wikidata.org/wiki/Q1383412","display_name":"Throughput","level":3,"score":0.5516685247421265},{"id":"https://openalex.org/C183905921","wikidata":"https://www.wikidata.org/wiki/Q1038757","display_name":"Multiple comparisons problem","level":2,"score":0.5099490880966187},{"id":"https://openalex.org/C2986587452","wikidata":"https://www.wikidata.org/wiki/Q938438","display_name":"Statistical analysis","level":2,"score":0.48057103157043457},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4370882213115692},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4098125696182251},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.3166481852531433},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.23369935154914856},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.16513794660568237},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.08161747455596924},{"id":"https://openalex.org/C76155785","wikidata":"https://www.wikidata.org/wiki/Q418","display_name":"Telecommunications","level":1,"score":0.06957364082336426},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0639144778251648},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.06056088209152222},{"id":"https://openalex.org/C153349607","wikidata":"https://www.wikidata.org/wiki/Q36649","display_name":"Visual arts","level":1,"score":0.0},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0},{"id":"https://openalex.org/C142362112","wikidata":"https://www.wikidata.org/wiki/Q735","display_name":"Art","level":0,"score":0.0},{"id":"https://openalex.org/C555944384","wikidata":"https://www.wikidata.org/wiki/Q249","display_name":"Wireless","level":2,"score":0.0}],"mesh":[{"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":true},{"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":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btad366","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btad366","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/39/6/btad366/50647328/btad366.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:37279733","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/37279733","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:diginole.lib.fsu.edu:fsu_1031357","is_oa":true,"landing_page_url":"https://purl.lib.fsu.edu/diginole/fsu_oa_articles_2023_003","pdf_url":"https://repository.lib.fsu.edu/islandora/object/fsu%3A1031357/datastream/PDF/view","source":{"id":"https://openalex.org/S4306401638","display_name":"DigiNole (Florida State University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I103163165","host_organization_name":"Florida State University","host_organization_lineage":["https://openalex.org/I103163165"],"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":"journal article"},{"id":"pmh:oai:pubmedcentral.nih.gov:10279524","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10279524","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10279524/pdf/btad366.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/btad366","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btad366","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/39/6/btad366/50647328/btad366.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/G1135038377","display_name":null,"funder_award_id":"1217148","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G2082826544","display_name":null,"funder_award_id":"Postdoctoral","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G2087396116","display_name":null,"funder_award_id":"China","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G3062801088","display_name":null,"funder_award_id":"801212021410","funder_id":"https://openalex.org/F4320321543","funder_display_name":"China Postdoctoral Science Foundation"},{"id":"https://openalex.org/G3317480652","display_name":null,"funder_award_id":"Science","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G4377681805","display_name":null,"funder_award_id":"21202141","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5994120800","display_name":null,"funder_award_id":"Natural","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G6571480465","display_name":null,"funder_award_id":"12171483","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320321543","display_name":"China Postdoctoral Science Foundation","ror":"https://ror.org/0426zh255"}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4379598914.pdf"},"referenced_works_count":35,"referenced_works":["https://openalex.org/W1596515083","https://openalex.org/W1964895626","https://openalex.org/W1974565082","https://openalex.org/W2037586880","https://openalex.org/W2052611179","https://openalex.org/W2054344444","https://openalex.org/W2066727335","https://openalex.org/W2081942683","https://openalex.org/W2105381419","https://openalex.org/W2110065044","https://openalex.org/W2127812190","https://openalex.org/W2143965359","https://openalex.org/W2146273335","https://openalex.org/W2159798686","https://openalex.org/W2164466305","https://openalex.org/W2220135973","https://openalex.org/W2462053388","https://openalex.org/W2471536144","https://openalex.org/W2766240471","https://openalex.org/W2790641860","https://openalex.org/W2790675139","https://openalex.org/W2915848182","https://openalex.org/W2953036966","https://openalex.org/W3001833132","https://openalex.org/W3018107909","https://openalex.org/W3088845782","https://openalex.org/W3104066961","https://openalex.org/W3108118546","https://openalex.org/W3112563877","https://openalex.org/W3173882906","https://openalex.org/W3203176450","https://openalex.org/W4205470728","https://openalex.org/W4230727657","https://openalex.org/W4294052977","https://openalex.org/W6684389787"],"related_works":["https://openalex.org/W4293336298","https://openalex.org/W2467227750","https://openalex.org/W2093104131","https://openalex.org/W2178204436","https://openalex.org/W4300887971","https://openalex.org/W2143079975","https://openalex.org/W2333750400","https://openalex.org/W1986765826","https://openalex.org/W2766832551","https://openalex.org/W1921844237"],"abstract_inverted_index":{"An":[0],"R":[1],"package":[2],"JUMP":[3,6],"implementing":[4],"the":[5],"method":[7],"is":[8],"available":[9],"on":[10],"CRAN":[11],"(https://CRAN.R-project.org/package=JUMP).":[12]},"counts_by_year":[{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":2}],"updated_date":"2026-04-18T07:56:08.524223","created_date":"2025-10-10T00:00:00"}
