{"id":"https://openalex.org/W4404547447","doi":"https://doi.org/10.1093/bioinformatics/btae696","title":"Mutual information for detecting multi-class biomarkers when integrating multiple bulk or single-cell transcriptomic studies","display_name":"Mutual information for detecting multi-class biomarkers when integrating multiple bulk or single-cell transcriptomic studies","publication_year":2024,"publication_date":"2024-11-15","ids":{"openalex":"https://openalex.org/W4404547447","doi":"https://doi.org/10.1093/bioinformatics/btae696","pmid":"https://pubmed.ncbi.nlm.nih.gov/39563471"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btae696","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae696","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btae696/60762600/btae696.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/btae696/60762600/btae696.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5023539012","display_name":"Jian Zou","orcid":"https://orcid.org/0009-0006-9624-6487"},"institutions":[{"id":"https://openalex.org/I4210153612","display_name":"Chongqing Public Health Medical Center","ror":"https://ror.org/04dcmpg83","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210153612"]},{"id":"https://openalex.org/I87780372","display_name":"Chongqing Medical University","ror":"https://ror.org/017z00e58","country_code":"CN","type":"education","lineage":["https://openalex.org/I87780372"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jian Zou","raw_affiliation_strings":["Department of Statistics, School of Public Health, Chongqing Medical University , Chongqing, Chongqing 400016,","Department of Statistics, School of Public Health, Chongqing Medical University, Chongqing, Chongqing 400016, China"],"raw_orcid":"https://orcid.org/0009-0006-9624-6487","affiliations":[{"raw_affiliation_string":"Department of Statistics, School of Public Health, Chongqing Medical University , Chongqing, Chongqing 400016,","institution_ids":["https://openalex.org/I4210153612","https://openalex.org/I87780372"]},{"raw_affiliation_string":"Department of Statistics, School of Public Health, Chongqing Medical University, Chongqing, Chongqing 400016, China","institution_ids":["https://openalex.org/I4210153612","https://openalex.org/I87780372"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073085049","display_name":"Zheqi Li","orcid":"https://orcid.org/0000-0003-1213-640X"},"institutions":[{"id":"https://openalex.org/I136199984","display_name":"Harvard University","ror":"https://ror.org/03vek6s52","country_code":"US","type":"education","lineage":["https://openalex.org/I136199984"]},{"id":"https://openalex.org/I4210117453","display_name":"Dana-Farber Cancer Institute","ror":"https://ror.org/02jzgtq86","country_code":"US","type":"facility","lineage":["https://openalex.org/I4210117453"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Zheqi Li","raw_affiliation_strings":["Department of Medical Oncology, Dana-Farber Cancer Institute , Boston, MA 02215,","Department of Medicine, Harvard Medical School , Boston, MA 02215,","Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, Massachusetts 02215, United States","Department of Medicine, Harvard Medical School, Boston, Massachusetts 02215, United States"],"raw_orcid":"https://orcid.org/0000-0003-1213-640X","affiliations":[{"raw_affiliation_string":"Department of Medical Oncology, Dana-Farber Cancer Institute , Boston, MA 02215,","institution_ids":["https://openalex.org/I4210117453"]},{"raw_affiliation_string":"Department of Medicine, Harvard Medical School , Boston, MA 02215,","institution_ids":["https://openalex.org/I136199984"]},{"raw_affiliation_string":"Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, Massachusetts 02215, United States","institution_ids":["https://openalex.org/I4210117453"]},{"raw_affiliation_string":"Department of Medicine, Harvard Medical School, Boston, Massachusetts 02215, United States","institution_ids":["https://openalex.org/I136199984"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5000883137","display_name":"Neil Carleton","orcid":"https://orcid.org/0000-0001-6985-7510"},"institutions":[{"id":"https://openalex.org/I170201317","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305","country_code":"US","type":"education","lineage":["https://openalex.org/I170201317"]},{"id":"https://openalex.org/I4210097282","display_name":"Magee-Womens Research Institute","ror":"https://ror.org/00rnw4e09","country_code":"US","type":"facility","lineage":["https://openalex.org/I4210097282"]},{"id":"https://openalex.org/I4210127473","display_name":"Cancer Research Center","ror":"https://ror.org/03fbwjm33","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210127473"]},{"id":"https://openalex.org/I4210128526","display_name":"UPMC Hillman Cancer Center","ror":"https://ror.org/03bw34a45","country_code":"US","type":"facility","lineage":["https://openalex.org/I170201317","https://openalex.org/I4210128526"]},{"id":"https://openalex.org/I4210134769","display_name":"University of Pittsburgh Medical Center","ror":"https://ror.org/04ehecz88","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I4210098814","https://openalex.org/I4210134769"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Neil Carleton","raw_affiliation_strings":["Magee-Womens Research Institute , Pittsburgh, PA 15213,","Medical Scientist Training Program, School of Medicine, University of Pittsburgh , Pittsburgh, PA 15213,","Women\u2019s Cancer Research Center, UPMC Hillman Cancer Center (HCC) , Pittsburgh, PA 15232,","Magee-Womens Research Institute, Pittsburgh, Pennsylvania 15213, United States","Medical Scientist Training Program, School of Medicine, University of Pittsburgh, Pittsburgh, Pennsylvania 15213, United States","Women's Cancer Research Center, UPMC Hillman Cancer Center (HCC), Pittsburgh, Pennsylvania 15232, United States"],"raw_orcid":"https://orcid.org/0000-0001-6985-7510","affiliations":[{"raw_affiliation_string":"Magee-Womens Research Institute , Pittsburgh, PA 15213,","institution_ids":["https://openalex.org/I4210097282"]},{"raw_affiliation_string":"Medical Scientist Training Program, School of Medicine, University of Pittsburgh , Pittsburgh, PA 15213,","institution_ids":["https://openalex.org/I170201317","https://openalex.org/I4210134769"]},{"raw_affiliation_string":"Women\u2019s Cancer Research Center, UPMC Hillman Cancer Center (HCC) , Pittsburgh, PA 15232,","institution_ids":["https://openalex.org/I4210128526"]},{"raw_affiliation_string":"Magee-Womens Research Institute, Pittsburgh, Pennsylvania 15213, United States","institution_ids":["https://openalex.org/I4210097282"]},{"raw_affiliation_string":"Medical Scientist Training Program, School of Medicine, University of Pittsburgh, Pittsburgh, Pennsylvania 15213, United States","institution_ids":["https://openalex.org/I170201317"]},{"raw_affiliation_string":"Women's Cancer Research Center, UPMC Hillman Cancer Center (HCC), Pittsburgh, Pennsylvania 15232, United States","institution_ids":["https://openalex.org/I4210127473","https://openalex.org/I4210128526"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5002309098","display_name":"Steffi Oesterreich","orcid":"https://orcid.org/0000-0002-2537-6923"},"institutions":[{"id":"https://openalex.org/I170201317","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305","country_code":"US","type":"education","lineage":["https://openalex.org/I170201317"]},{"id":"https://openalex.org/I4210097282","display_name":"Magee-Womens Research Institute","ror":"https://ror.org/00rnw4e09","country_code":"US","type":"facility","lineage":["https://openalex.org/I4210097282"]},{"id":"https://openalex.org/I4210127473","display_name":"Cancer Research Center","ror":"https://ror.org/03fbwjm33","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210127473"]},{"id":"https://openalex.org/I4210128526","display_name":"UPMC Hillman Cancer Center","ror":"https://ror.org/03bw34a45","country_code":"US","type":"facility","lineage":["https://openalex.org/I170201317","https://openalex.org/I4210128526"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Steffi Oesterreich","raw_affiliation_strings":["Department of Pharmacology & Chemical Biology, University of Pittsburgh , Pittsburgh, PA 15213,","Magee-Womens Research Institute , Pittsburgh, PA 15213,","Women\u2019s Cancer Research Center, UPMC Hillman Cancer Center (HCC) , Pittsburgh, PA 15232,","Department of Pharmacology & Chemical Biology, University of Pittsburgh, Pittsburgh, Pennsylvania 15213, United States","Magee-Womens Research Institute, Pittsburgh, Pennsylvania 15213, United States","Women's Cancer Research Center, UPMC Hillman Cancer Center (HCC), Pittsburgh, Pennsylvania 15232, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pharmacology & Chemical Biology, University of Pittsburgh , Pittsburgh, PA 15213,","institution_ids":["https://openalex.org/I170201317"]},{"raw_affiliation_string":"Magee-Womens Research Institute , Pittsburgh, PA 15213,","institution_ids":["https://openalex.org/I4210097282"]},{"raw_affiliation_string":"Women\u2019s Cancer Research Center, UPMC Hillman Cancer Center (HCC) , Pittsburgh, PA 15232,","institution_ids":["https://openalex.org/I4210128526"]},{"raw_affiliation_string":"Department of Pharmacology & Chemical Biology, University of Pittsburgh, Pittsburgh, Pennsylvania 15213, United States","institution_ids":["https://openalex.org/I170201317"]},{"raw_affiliation_string":"Magee-Womens Research Institute, Pittsburgh, Pennsylvania 15213, United States","institution_ids":["https://openalex.org/I4210097282"]},{"raw_affiliation_string":"Women's Cancer Research Center, UPMC Hillman Cancer Center (HCC), Pittsburgh, Pennsylvania 15232, United States","institution_ids":["https://openalex.org/I4210127473","https://openalex.org/I4210128526"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5041977512","display_name":"Adrian V. Lee","orcid":"https://orcid.org/0000-0001-9917-514X"},"institutions":[{"id":"https://openalex.org/I170201317","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305","country_code":"US","type":"education","lineage":["https://openalex.org/I170201317"]},{"id":"https://openalex.org/I4210097282","display_name":"Magee-Womens Research Institute","ror":"https://ror.org/00rnw4e09","country_code":"US","type":"facility","lineage":["https://openalex.org/I4210097282"]},{"id":"https://openalex.org/I4210127473","display_name":"Cancer Research Center","ror":"https://ror.org/03fbwjm33","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210127473"]},{"id":"https://openalex.org/I4210128526","display_name":"UPMC Hillman Cancer Center","ror":"https://ror.org/03bw34a45","country_code":"US","type":"facility","lineage":["https://openalex.org/I170201317","https://openalex.org/I4210128526"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Adrian V Lee","raw_affiliation_strings":["Department of Pharmacology & Chemical Biology, University of Pittsburgh , Pittsburgh, PA 15213,","Magee-Womens Research Institute , Pittsburgh, PA 15213,","Women\u2019s Cancer Research Center, UPMC Hillman Cancer Center (HCC) , Pittsburgh, PA 15232,","Department of Pharmacology & Chemical Biology, University of Pittsburgh, Pittsburgh, Pennsylvania 15213, United States","Magee-Womens Research Institute, Pittsburgh, Pennsylvania 15213, United States","Women's Cancer Research Center, UPMC Hillman Cancer Center (HCC), Pittsburgh, Pennsylvania 15232, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pharmacology & Chemical Biology, University of Pittsburgh , Pittsburgh, PA 15213,","institution_ids":["https://openalex.org/I170201317"]},{"raw_affiliation_string":"Magee-Womens Research Institute , Pittsburgh, PA 15213,","institution_ids":["https://openalex.org/I4210097282"]},{"raw_affiliation_string":"Women\u2019s Cancer Research Center, UPMC Hillman Cancer Center (HCC) , Pittsburgh, PA 15232,","institution_ids":["https://openalex.org/I4210128526"]},{"raw_affiliation_string":"Department of Pharmacology & Chemical Biology, University of Pittsburgh, Pittsburgh, Pennsylvania 15213, United States","institution_ids":["https://openalex.org/I170201317"]},{"raw_affiliation_string":"Magee-Womens Research Institute, Pittsburgh, Pennsylvania 15213, United States","institution_ids":["https://openalex.org/I4210097282"]},{"raw_affiliation_string":"Women's Cancer Research Center, UPMC Hillman Cancer Center (HCC), Pittsburgh, Pennsylvania 15232, United States","institution_ids":["https://openalex.org/I4210127473","https://openalex.org/I4210128526"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5023821329","display_name":"George C. Tseng","orcid":"https://orcid.org/0000-0002-5447-1014"},"institutions":[{"id":"https://openalex.org/I170201317","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305","country_code":"US","type":"education","lineage":["https://openalex.org/I170201317"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"George C Tseng","raw_affiliation_strings":["Department of Biostatistics, University of Pittsburgh , Pittsburgh, PA 15213,","Department of Biostatistics, University of Pittsburgh, Pittsburgh, Pennsylvania 15213, United States"],"raw_orcid":"https://orcid.org/0000-0002-5447-1014","affiliations":[{"raw_affiliation_string":"Department of Biostatistics, University of Pittsburgh , Pittsburgh, PA 15213,","institution_ids":["https://openalex.org/I170201317"]},{"raw_affiliation_string":"Department of Biostatistics, University of Pittsburgh, Pittsburgh, Pennsylvania 15213, United States","institution_ids":["https://openalex.org/I170201317"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":9,"corresponding_author_ids":["https://openalex.org/A5023821329"],"corresponding_institution_ids":["https://openalex.org/I170201317"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.4801,"has_fulltext":true,"cited_by_count":3,"citation_normalized_percentile":{"value":0.62596061,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":96,"max":97},"biblio":{"volume":"40","issue":"12","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":0.9635999798774719,"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":0.9635999798774719,"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":0.020800000056624413,"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/T11297","display_name":"Ferroptosis and cancer prognosis","score":0.002099999925121665,"subfield":{"id":"https://openalex.org/subfields/2740","display_name":"Pulmonary and Respiratory Medicine"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6249886751174927},{"id":"https://openalex.org/keywords/class","display_name":"Class (philosophy)","score":0.6245853900909424},{"id":"https://openalex.org/keywords/transcriptome","display_name":"Transcriptome","score":0.6100120544433594},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4871325194835663},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.361689031124115},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3286571502685547},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2578570544719696},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.14774325489997864},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.13235071301460266},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.12995022535324097}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6249886751174927},{"id":"https://openalex.org/C2777212361","wikidata":"https://www.wikidata.org/wiki/Q5127848","display_name":"Class (philosophy)","level":2,"score":0.6245853900909424},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.6100120544433594},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4871325194835663},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.361689031124115},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3286571502685547},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2578570544719696},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.14774325489997864},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.13235071301460266},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.12995022535324097}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","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":"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":"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":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014408","descriptor_name":"Biomarkers, Tumor","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014408","descriptor_name":"Biomarkers, Tumor","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014408","descriptor_name":"Biomarkers, Tumor","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014408","descriptor_name":"Biomarkers, Tumor","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014408","descriptor_name":"Biomarkers, Tumor","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D015415","descriptor_name":"Biomarkers","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D015415","descriptor_name":"Biomarkers","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D015415","descriptor_name":"Biomarkers","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D015415","descriptor_name":"Biomarkers","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D015415","descriptor_name":"Biomarkers","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"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":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":true},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","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},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btae696","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae696","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btae696/60762600/btae696.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:39563471","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/39563471","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:11629966","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11629966","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11629966/pdf/btae696.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"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btae696","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae696","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btae696/60762600/btae696.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":[{"score":0.550000011920929,"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being"}],"awards":[{"id":"https://openalex.org/G1187398787","display_name":null,"funder_award_id":"R01 CA221303","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"},{"id":"https://openalex.org/G1749073659","display_name":null,"funder_award_id":"R01 LM014142","funder_id":"https://openalex.org/F4320337372","funder_display_name":"U.S. National Library of Medicine"},{"id":"https://openalex.org/G3025648356","display_name":null,"funder_award_id":"SCR 022735","funder_id":"https://openalex.org/F4320310174","funder_display_name":"University of Pittsburgh"},{"id":"https://openalex.org/G5016007905","display_name":"High-Throughput Computing for Genomics and Bioinformatics Research","funder_award_id":"1s10od028483-01a1","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G5125244986","display_name":"Disease subtyping guided by clinical phenotype for precision medicine","funder_award_id":"1r01lm014142-01","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G642779400","display_name":null,"funder_award_id":"S10OD028483","funder_id":"https://openalex.org/F4320310174","funder_display_name":"University of Pittsburgh"},{"id":"https://openalex.org/G6808301286","display_name":null,"funder_award_id":"R01256161","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"},{"id":"https://openalex.org/G8071696616","display_name":null,"funder_award_id":"5F30CA264963-02","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"}],"funders":[{"id":"https://openalex.org/F4320306260","display_name":"Breast Cancer Research Foundation","ror":"https://ror.org/0348ff195"},{"id":"https://openalex.org/F4320310174","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320333934","display_name":"Center for Research Computing, University of Pittsburgh","ror":null},{"id":"https://openalex.org/F4320337351","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81"},{"id":"https://openalex.org/F4320337372","display_name":"U.S. National Library of Medicine","ror":"https://ror.org/0060t0j89"}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W4404547447.pdf"},"referenced_works_count":47,"referenced_works":["https://openalex.org/W1556717463","https://openalex.org/W1582569750","https://openalex.org/W1967046314","https://openalex.org/W1981106668","https://openalex.org/W1990153910","https://openalex.org/W1995520428","https://openalex.org/W1998712640","https://openalex.org/W2005895632","https://openalex.org/W2008458159","https://openalex.org/W2012034410","https://openalex.org/W2018838463","https://openalex.org/W2024640399","https://openalex.org/W2056830390","https://openalex.org/W2095439994","https://openalex.org/W2107665951","https://openalex.org/W2111001866","https://openalex.org/W2116781726","https://openalex.org/W2120865735","https://openalex.org/W2146512944","https://openalex.org/W2147234629","https://openalex.org/W2156371957","https://openalex.org/W2156631105","https://openalex.org/W2162143298","https://openalex.org/W2271992669","https://openalex.org/W2513453485","https://openalex.org/W2623250838","https://openalex.org/W2780155440","https://openalex.org/W2789414284","https://openalex.org/W2887015436","https://openalex.org/W2889267981","https://openalex.org/W2948469692","https://openalex.org/W3007397831","https://openalex.org/W3092493138","https://openalex.org/W3093443834","https://openalex.org/W3102660612","https://openalex.org/W3175752499","https://openalex.org/W3198511950","https://openalex.org/W3201900343","https://openalex.org/W4210702584","https://openalex.org/W4241091798","https://openalex.org/W4282960707","https://openalex.org/W4286219978","https://openalex.org/W4294141750","https://openalex.org/W4323036511","https://openalex.org/W4360610943","https://openalex.org/W4379376826","https://openalex.org/W6797786779"],"related_works":["https://openalex.org/W2399513595","https://openalex.org/W4388386498","https://openalex.org/W2028462563","https://openalex.org/W2982720988","https://openalex.org/W4388725868","https://openalex.org/W2104762330","https://openalex.org/W4379374180","https://openalex.org/W2523545060","https://openalex.org/W4229998356","https://openalex.org/W4311517665"],"abstract_inverted_index":{"MOTIVATION:":[0],"Biomarker":[1],"detection":[2,25],"plays":[3],"a":[4,69,113],"pivotal":[5],"role":[6],"in":[7,209],"biomedical":[8],"research.":[9],"Integrating":[10],"omics":[11,33,88,110],"studies":[12,34,51,89,111,132],"from":[13,57,90,248],"multiple":[14,58,87],"cohorts":[15],"can":[16,244],"enhance":[17],"statistical":[18,70],"power,":[19],"accuracy,":[20],"and":[21,45,130,141,172,188,217],"robustness":[22],"of":[23,108,147,167,175,206,213,221],"the":[24,109,210,219,241],"results.":[26],"However,":[27],"existing":[28,152],"methods":[29],"for":[30,38,50,126,195,199,223],"horizontally":[31],"combining":[32],"are":[35,46],"mostly":[36],"designed":[37],"two-class":[39],"scenarios":[40],"(e.g.":[41,55],"cases":[42],"versus":[43],"controls)":[44],"not":[47],"directly":[48,247],"applicable":[49],"with":[52,81,100,133],"multi-class":[53,83,102,153],"design":[54],"samples":[56],"disease":[59],"subtypes,":[60],"treatments,":[61],"tissues,":[62],"or":[63,106],"cell":[64],"types).":[65],"RESULTS:":[66],"We":[67],"propose":[68],"framework,":[71],"namely":[72],"Mutual":[73],"Information":[74],"Concordance":[75],"Analysis":[76],"(MICA),":[77],"to":[78,150,161],"detect":[79],"biomarkers":[80,99,129,181],"concordant":[82,101,134],"expression":[84,178],"pattern":[85],"across":[86,104],"an":[91,151],"information":[92],"theoretic":[93],"perspective.":[94],"Our":[95],"approach":[96],"first":[97],"detects":[98],"patterns":[103],"partial":[105],"all":[107],"using":[112],"global":[114],"test":[115],"by":[116,182],"mutual":[117],"information.":[118],"A":[119],"post":[120],"hoc":[121],"analysis":[122],"is":[123,158,234],"then":[124,159],"performed":[125],"each":[127],"detected":[128],"identify":[131],"pattern.":[135],"Extensive":[136],"simulations":[137],"demonstrate":[138],"improved":[139],"accuracy":[140],"successful":[142],"false":[143],"discovery":[144],"rate":[145],"control":[146],"MICA":[148,183,194,222],"compared":[149],"correlation":[154],"method.":[155],"The":[156,231],"method":[157],"applied":[160],"two":[162],"practical":[163],"scenarios:":[164],"four":[165],"tissues":[166],"mouse":[168],"metabolism-related":[169],"transcriptomic":[170],"studies,":[171],"three":[173],"sources":[174],"estrogen":[176],"treatment":[177],"profiles.":[179],"Detected":[180],"show":[184],"intriguing":[185],"biological":[186],"insights":[187],"functional":[189],"annotations.":[190],"Additionally,":[191,240],"we":[192],"implemented":[193],"single-cell":[196],"RNA-Seq":[197],"data":[198],"tumor":[200,211],"progression":[201],"biomarkers,":[202],"highlighting":[203],"critical":[204],"roles":[205],"ribosomal":[207],"function":[208],"microenvironment":[212],"triple-negative":[214],"breast":[215],"cancer":[216],"underscoring":[218],"potential":[220],"detecting":[224],"novel":[225],"therapeutic":[226],"targets.":[227],"AVAILABILITY":[228],"AND":[229],"IMPLEMENTATION:":[230],"source":[232],"code":[233],"available":[235],"on":[236],"Figshare":[237],"at":[238,250],"https://doi.org/10.6084/m9.figshare.27635436.":[239],"R":[242],"package":[243],"be":[245],"installed":[246],"GitHub":[249],"https://github.com/jianzou75/MICA.":[251]},"counts_by_year":[{"year":2025,"cited_by_count":3}],"updated_date":"2026-08-06T08:24:18.245995","created_date":"2025-10-10T00:00:00"}