{"id":"https://openalex.org/W2994026739","doi":"https://doi.org/10.1186/s12859-019-3070-4","title":"Joint between-sample normalization and differential expression detection through \u21130-regularized regression","display_name":"Joint between-sample normalization and differential expression detection through \u21130-regularized regression","publication_year":2019,"publication_date":"2019-12-01","ids":{"openalex":"https://openalex.org/W2994026739","doi":"https://doi.org/10.1186/s12859-019-3070-4","mag":"2994026739","pmid":"https://pubmed.ncbi.nlm.nih.gov/31787074"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-019-3070-4","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-019-3070-4","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-019-3070-4","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-019-3070-4","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5101858721","display_name":"Kefei Liu","orcid":"https://orcid.org/0000-0003-0737-9976"},"institutions":[{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Kefei Liu","raw_affiliation_strings":["Department of Biostatistics, Epidemiology and Informatics, University of Pennsylvania, 423 Guardian Dr, Philadelphia, PA, 19104, USA","Department of Biostatistics, Epidemiology and Informatics, University of Pennsylvania, Philadelphia, PA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biostatistics, Epidemiology and Informatics, University of Pennsylvania, 423 Guardian Dr, Philadelphia, PA, 19104, USA","institution_ids":["https://openalex.org/I79576946"]},{"raw_affiliation_string":"Department of Biostatistics, Epidemiology and Informatics, University of Pennsylvania, Philadelphia, PA, USA","institution_ids":["https://openalex.org/I79576946"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100333320","display_name":"Li Shen","orcid":"https://orcid.org/0000-0002-5443-0503"},"institutions":[{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Li Shen","raw_affiliation_strings":["Department of Biostatistics, Epidemiology and Informatics, University of Pennsylvania, 423 Guardian Dr, Philadelphia, PA, 19104, USA","Department of Biostatistics, Epidemiology and Informatics, University of Pennsylvania, Philadelphia, PA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biostatistics, Epidemiology and Informatics, University of Pennsylvania, 423 Guardian Dr, Philadelphia, PA, 19104, USA","institution_ids":["https://openalex.org/I79576946"]},{"raw_affiliation_string":"Department of Biostatistics, Epidemiology and Informatics, University of Pennsylvania, Philadelphia, PA, USA","institution_ids":["https://openalex.org/I79576946"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100779276","display_name":"Hui Jiang","orcid":"https://orcid.org/0000-0003-2718-9811"},"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":true,"raw_author_name":"Hui Jiang","raw_affiliation_strings":["Department of Biostatistics, University of Michigan, 1415 Washington Heights, Ann Arbor, MI, 48109, USA. jianghui@umich.edu","Department of Biostatistics, University of Michigan, Ann Arbor, MI, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biostatistics, University of Michigan, 1415 Washington Heights, Ann Arbor, MI, 48109, USA. jianghui@umich.edu","institution_ids":["https://openalex.org/I27837315"]},{"raw_affiliation_string":"Department of Biostatistics, University of Michigan, Ann Arbor, MI, USA","institution_ids":["https://openalex.org/I27837315"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5100779276"],"corresponding_institution_ids":["https://openalex.org/I27837315"],"apc_list":{"value":2790,"currency":"USD","value_usd":2790},"apc_paid":{"value":2790,"currency":"USD","value_usd":2790},"fwci":0.0758,"has_fulltext":true,"cited_by_count":2,"citation_normalized_percentile":{"value":0.44136291,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":"20","issue":"S16","first_page":"593","last_page":"593"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.5976999998092651,"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":0.5976999998092651,"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/T10136","display_name":"Statistical Methods and Inference","score":0.21310000121593475,"subfield":{"id":"https://openalex.org/subfields/2613","display_name":"Statistics and Probability"},"field":{"id":"https://openalex.org/fields/26","display_name":"Mathematics"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.06469999998807907,"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/normalization","display_name":"Normalization (sociology)","score":0.7979085445404053},{"id":"https://openalex.org/keywords/categorical-variable","display_name":"Categorical variable","score":0.5576093196868896},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4914635419845581},{"id":"https://openalex.org/keywords/dna-microarray","display_name":"DNA microarray","score":0.47442716360092163},{"id":"https://openalex.org/keywords/rna-seq","display_name":"RNA-Seq","score":0.4723179042339325},{"id":"https://openalex.org/keywords/regression","display_name":"Regression","score":0.4655728042125702},{"id":"https://openalex.org/keywords/database-normalization","display_name":"Database normalization","score":0.4403120279312134},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.392801433801651},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.3901769518852234},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.38476473093032837},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.3603672683238983},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3374258875846863},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.3189639449119568},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.2912636995315552},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.28879255056381226},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.26702219247817993},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.24433237314224243},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.1731531322002411},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.12811920046806335},{"id":"https://openalex.org/keywords/transcriptome","display_name":"Transcriptome","score":0.12420055270195007}],"concepts":[{"id":"https://openalex.org/C136886441","wikidata":"https://www.wikidata.org/wiki/Q926129","display_name":"Normalization (sociology)","level":2,"score":0.7979085445404053},{"id":"https://openalex.org/C5274069","wikidata":"https://www.wikidata.org/wiki/Q2285707","display_name":"Categorical variable","level":2,"score":0.5576093196868896},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4914635419845581},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.47442716360092163},{"id":"https://openalex.org/C107397762","wikidata":"https://www.wikidata.org/wiki/Q2542347","display_name":"RNA-Seq","level":5,"score":0.4723179042339325},{"id":"https://openalex.org/C83546350","wikidata":"https://www.wikidata.org/wiki/Q1139051","display_name":"Regression","level":2,"score":0.4655728042125702},{"id":"https://openalex.org/C162984825","wikidata":"https://www.wikidata.org/wiki/Q339072","display_name":"Database normalization","level":3,"score":0.4403120279312134},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.392801433801651},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.3901769518852234},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.38476473093032837},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.3603672683238983},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3374258875846863},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.3189639449119568},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.2912636995315552},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.28879255056381226},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.26702219247817993},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.24433237314224243},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.1731531322002411},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.12811920046806335},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.12420055270195007},{"id":"https://openalex.org/C144024400","wikidata":"https://www.wikidata.org/wiki/Q21201","display_name":"Sociology","level":0,"score":0.0},{"id":"https://openalex.org/C19165224","wikidata":"https://www.wikidata.org/wiki/Q23404","display_name":"Anthropology","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","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":"D008962","descriptor_name":"Models, Theoretical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008962","descriptor_name":"Models, Theoretical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008962","descriptor_name":"Models, Theoretical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012044","descriptor_name":"Regression Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012044","descriptor_name":"Regression Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012044","descriptor_name":"Regression Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019540","descriptor_name":"Area Under Curve","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019540","descriptor_name":"Area Under Curve","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019540","descriptor_name":"Area Under Curve","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1186/s12859-019-3070-4","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-019-3070-4","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-019-3070-4","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:31787074","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31787074","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:6886201","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6886201","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":"BMC Bioinformatics","raw_type":"Text"},{"id":"pmh:oai:deepblue.lib.umich.edu:2027.42/173427","is_oa":false,"landing_page_url":"https://hdl.handle.net/2027.42/173427","pdf_url":null,"source":{"id":"https://openalex.org/S4306400393","display_name":"Deep Blue (University of Michigan)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I27837315","host_organization_name":"University of Michigan","host_organization_lineage":["https://openalex.org/I27837315"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Journal Article"},{"id":"pmh:oai:doaj.org/article:544a8b0107044ba58007ab48f434a2f1","is_oa":true,"landing_page_url":"https://doaj.org/article/544a8b0107044ba58007ab48f434a2f1","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"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":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 20, Iss S16, Pp 1-16 (2019)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1186/s12859-019-3070-4","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-019-3070-4","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-019-3070-4","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1472747617","display_name":null,"funder_award_id":"P50  CA186786","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"}],"funders":[{"id":"https://openalex.org/F4320337351","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2994026739.pdf","grobid_xml":"https://content.openalex.org/works/W2994026739.grobid-xml"},"referenced_works_count":24,"referenced_works":["https://openalex.org/W1652923215","https://openalex.org/W1968544929","https://openalex.org/W2093629649","https://openalex.org/W2106319366","https://openalex.org/W2107018762","https://openalex.org/W2107564978","https://openalex.org/W2112058982","https://openalex.org/W2114104545","https://openalex.org/W2119185338","https://openalex.org/W2137526110","https://openalex.org/W2141458291","https://openalex.org/W2146512944","https://openalex.org/W2150943090","https://openalex.org/W2152239989","https://openalex.org/W2154431984","https://openalex.org/W2156631105","https://openalex.org/W2161112598","https://openalex.org/W2165909549","https://openalex.org/W2168390964","https://openalex.org/W2179438025","https://openalex.org/W2396960584","https://openalex.org/W2783823142","https://openalex.org/W2963705560","https://openalex.org/W2963986928"],"related_works":["https://openalex.org/W3185081511","https://openalex.org/W4241705247","https://openalex.org/W2107018762","https://openalex.org/W2145362441","https://openalex.org/W2101622345","https://openalex.org/W2582603276","https://openalex.org/W3134304369","https://openalex.org/W4386281023","https://openalex.org/W4312138714","https://openalex.org/W2096302356"],"abstract_inverted_index":{"Abstract":[0],"Background":[1],"A":[2],"fundamental":[3],"problem":[4,161],"in":[5,43,119,139,188,202,239],"RNA-seq":[6,31,90,227],"data":[7,179],"analysis":[8,87],"is":[9,55,97],"to":[10,58,99,116,132,222,229],"identify":[11,230],"genes":[12,145,198,231],"or":[13,153],"exons":[14],"that":[15,136,181],"are":[16,114,137,199],"differentially":[17,200],"expressed":[18,201],"with":[19,146,150,233],"varying":[20],"experimental":[21,112,134],"conditions":[22,113,135],"based":[23],"on":[24,177],"the":[25,34,52,59,160,182,207],"read":[26,38],"counts.":[27],"The":[28,111],"relativeness":[29],"of":[30,37,108,190,197],"measurements":[32],"makes":[33],"between-sample":[35],"normalization":[36,53,73,83],"counts":[39],"an":[40,93,169,203],"essential":[41],"step":[42,54],"differential":[44,85],"expression":[45,86,147],"(DE)":[46],"analysis.":[47,61],"In":[48,123],"most":[49],"existing":[50,186],"methods,":[51],"performed":[56],"prior":[57],"DE":[60,109],"Recently,":[62],"Jiang":[63,128],"and":[64,84,129,165,206],"Zhan":[65],"proposed":[66,183],"a":[67,76,101,106,143,151,194,223],"statistical":[68],"method":[69,131,184,221],"which":[70,79,104],"introduces":[71],"sample-specific":[72],"parameters":[74],"into":[75],"joint":[77],"model,":[78],"allows":[80],"for":[81,172,213],"simultaneous":[82],"from":[88],"log-transformed":[89],"data.":[91],"Furthermore,":[92],"\u2113":[94],"0":[95],"penalty":[96],"used":[98],"yield":[100],"sparse":[102],"solution":[103],"selects":[105],"subset":[107],"genes.":[110],"restricted":[115],"be":[117,157],"categorical":[118],"their":[120],"work.":[121],"Results":[122],"this":[124],"paper,":[125],"we":[126,167],"generalize":[127],"Zhan\u2019s":[130],"handle":[133],"measured":[138],"continuous":[140],"variables.":[141],"As":[142,159],"result,":[144],"levels":[148,238],"associated":[149,232],"single":[152],"multiple":[154],"covariates":[155],"can":[156],"detected.":[158],"being":[162],"high-dimensional,":[163],"non-differentiable":[164],"non-convex,":[166],"develop":[168],"efficient":[170],"algorithm":[171],"model":[173],"fitting.":[174],"Conclusions":[175],"Experiments":[176],"synthetic":[178],"demonstrate":[180],"outperforms":[185],"methods":[187],"terms":[189],"detection":[191],"accuracy":[192],"when":[193],"large":[195],"fraction":[196],"asymmetric":[204],"manner,":[205],"performance":[208],"gain":[209],"becomes":[210],"more":[211],"substantial":[212],"larger":[214],"sample":[215],"sizes.":[216],"We":[217],"also":[218],"apply":[219],"our":[220],"real":[224],"prostate":[225],"cancer":[226],"dataset":[228],"pre-operative":[234],"prostate-specific":[235],"antigen":[236],"(PSA)":[237],"patients.":[240]},"counts_by_year":[{"year":2021,"cited_by_count":1},{"year":2018,"cited_by_count":1}],"updated_date":"2026-08-11T07:18:39.950985","created_date":"2025-10-10T00:00:00"}
