{"id":"https://openalex.org/W2919378721","doi":"https://doi.org/10.1186/s12859-019-2654-3","title":"CeModule: an integrative framework for discovering regulatory patterns from genomic data in cancer","display_name":"CeModule: an integrative framework for discovering regulatory patterns from genomic data in cancer","publication_year":2019,"publication_date":"2019-02-07","ids":{"openalex":"https://openalex.org/W2919378721","doi":"https://doi.org/10.1186/s12859-019-2654-3","mag":"2919378721","pmid":"https://pubmed.ncbi.nlm.nih.gov/30732558"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-019-2654-3","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-019-2654-3","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-019-2654-3","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/counter/pdf/10.1186/s12859-019-2654-3","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5086050506","display_name":"Qiu Xiao","orcid":"https://orcid.org/0000-0002-4726-7154"},"institutions":[{"id":"https://openalex.org/I16609230","display_name":"Hunan University","ror":"https://ror.org/05htk5m33","country_code":"CN","type":"education","lineage":["https://openalex.org/I16609230"]},{"id":"https://openalex.org/I173759888","display_name":"Hunan Normal University","ror":"https://ror.org/053w1zy07","country_code":"CN","type":"education","lineage":["https://openalex.org/I173759888"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Qiu Xiao","raw_affiliation_strings":["College of Computer Science and Electronic Engineering, Hunan University, Changsha, 410082, China","Hunan Provincial Key Laboratory of Intelligent Computing and Language Information Processing, Hunan Normal University, Changsha, 410081, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computer Science and Electronic Engineering, Hunan University, Changsha, 410082, China","institution_ids":["https://openalex.org/I16609230"]},{"raw_affiliation_string":"Hunan Provincial Key Laboratory of Intelligent Computing and Language Information Processing, Hunan Normal University, Changsha, 410081, China","institution_ids":["https://openalex.org/I173759888"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5026469278","display_name":"Jiawei Luo","orcid":"https://orcid.org/0000-0003-2385-8272"},"institutions":[{"id":"https://openalex.org/I16609230","display_name":"Hunan University","ror":"https://ror.org/05htk5m33","country_code":"CN","type":"education","lineage":["https://openalex.org/I16609230"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Jiawei Luo","raw_affiliation_strings":["College of Computer Science and Electronic Engineering, Hunan University, Changsha, 410082, China. luojiawei@hnu.edu.cn","College of Computer Science and Electronic Engineering, Hunan University, Changsha, 410082, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computer Science and Electronic Engineering, Hunan University, Changsha, 410082, China. luojiawei@hnu.edu.cn","institution_ids":["https://openalex.org/I16609230"]},{"raw_affiliation_string":"College of Computer Science and Electronic Engineering, Hunan University, Changsha, 410082, China","institution_ids":["https://openalex.org/I16609230"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101756728","display_name":"Cheng Liang","orcid":"https://orcid.org/0000-0003-3832-0969"},"institutions":[{"id":"https://openalex.org/I28006308","display_name":"Shandong Normal University","ror":"https://ror.org/01wy3h363","country_code":"CN","type":"education","lineage":["https://openalex.org/I28006308"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Cheng Liang","raw_affiliation_strings":["College of Information Science and Engineering, Shandong Normal University, Jinan, 250000, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Information Science and Engineering, Shandong Normal University, Jinan, 250000, China","institution_ids":["https://openalex.org/I28006308"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5079611154","display_name":"Jie Cai","orcid":"https://orcid.org/0000-0002-6561-5626"},"institutions":[{"id":"https://openalex.org/I16609230","display_name":"Hunan University","ror":"https://ror.org/05htk5m33","country_code":"CN","type":"education","lineage":["https://openalex.org/I16609230"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jie Cai","raw_affiliation_strings":["College of Computer Science and Electronic Engineering, Hunan University, Changsha, 410082, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computer Science and Electronic Engineering, Hunan University, Changsha, 410082, China","institution_ids":["https://openalex.org/I16609230"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100393102","display_name":"Guanghui Li","orcid":"https://orcid.org/0000-0001-6531-1166"},"institutions":[{"id":"https://openalex.org/I16609230","display_name":"Hunan University","ror":"https://ror.org/05htk5m33","country_code":"CN","type":"education","lineage":["https://openalex.org/I16609230"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Guanghui Li","raw_affiliation_strings":["College of Computer Science and Electronic Engineering, Hunan University, Changsha, 410082, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computer Science and Electronic Engineering, Hunan University, Changsha, 410082, China","institution_ids":["https://openalex.org/I16609230"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5017282597","display_name":"Buwen Cao","orcid":"https://orcid.org/0000-0002-9372-1135"},"institutions":[{"id":"https://openalex.org/I16609230","display_name":"Hunan University","ror":"https://ror.org/05htk5m33","country_code":"CN","type":"education","lineage":["https://openalex.org/I16609230"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Buwen Cao","raw_affiliation_strings":["College of Computer Science and Electronic Engineering, Hunan University, Changsha, 410082, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computer Science and Electronic Engineering, Hunan University, Changsha, 410082, China","institution_ids":["https://openalex.org/I16609230"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5026469278"],"corresponding_institution_ids":["https://openalex.org/I16609230"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":1.2955,"has_fulltext":true,"cited_by_count":21,"citation_normalized_percentile":{"value":0.76548765,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"20","issue":"1","first_page":"67","last_page":"67"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10515","display_name":"Cancer-related molecular mechanisms research","score":0.9050999879837036,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/T10515","display_name":"Cancer-related molecular mechanisms research","score":0.9050999879837036,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/T10062","display_name":"MicroRNA in disease regulation","score":0.04529999941587448,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/T10604","display_name":"RNA Research and Splicing","score":0.008100000210106373,"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/computational-biology","display_name":"Computational biology","score":0.7082929611206055},{"id":"https://openalex.org/keywords/microrna","display_name":"microRNA","score":0.7080751657485962},{"id":"https://openalex.org/keywords/competing-endogenous-rna","display_name":"Competing endogenous RNA","score":0.6781138181686401},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.6623657941818237},{"id":"https://openalex.org/keywords/gene-regulatory-network","display_name":"Gene regulatory network","score":0.483221173286438},{"id":"https://openalex.org/keywords/carcinogenesis","display_name":"Carcinogenesis","score":0.4445819854736328},{"id":"https://openalex.org/keywords/regulation-of-gene-expression","display_name":"Regulation of gene expression","score":0.4229552149772644},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.35307326912879944},{"id":"https://openalex.org/keywords/long-non-coding-rna","display_name":"Long non-coding RNA","score":0.34686487913131714},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.328768253326416},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.30066096782684326},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2641477584838867},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.25546079874038696}],"concepts":[{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.7082929611206055},{"id":"https://openalex.org/C145059251","wikidata":"https://www.wikidata.org/wiki/Q310899","display_name":"microRNA","level":3,"score":0.7080751657485962},{"id":"https://openalex.org/C60365752","wikidata":"https://www.wikidata.org/wiki/Q5156306","display_name":"Competing endogenous RNA","level":5,"score":0.6781138181686401},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6623657941818237},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.483221173286438},{"id":"https://openalex.org/C555283112","wikidata":"https://www.wikidata.org/wiki/Q1637543","display_name":"Carcinogenesis","level":3,"score":0.4445819854736328},{"id":"https://openalex.org/C165864922","wikidata":"https://www.wikidata.org/wiki/Q411391","display_name":"Regulation of gene expression","level":3,"score":0.4229552149772644},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.35307326912879944},{"id":"https://openalex.org/C62203573","wikidata":"https://www.wikidata.org/wiki/Q15087973","display_name":"Long non-coding RNA","level":4,"score":0.34686487913131714},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.328768253326416},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.30066096782684326},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2641477584838867},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.25546079874038696}],"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":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","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":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D010051","descriptor_name":"Ovarian Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D010051","descriptor_name":"Ovarian Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D010051","descriptor_name":"Ovarian Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015972","descriptor_name":"Gene Expression Regulation, Neoplastic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015972","descriptor_name":"Gene Expression Regulation, Neoplastic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015972","descriptor_name":"Gene Expression Regulation, Neoplastic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D023281","descriptor_name":"Genomics","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},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D063990","descriptor_name":"Gene Ontology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D063990","descriptor_name":"Gene Ontology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D063990","descriptor_name":"Gene Ontology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1186/s12859-019-2654-3","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-019-2654-3","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-019-2654-3","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:30732558","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30732558","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:doaj.org/article:a6edbbabf9e44814b008aa06865b0dfb","is_oa":true,"landing_page_url":"https://doaj.org/article/a6edbbabf9e44814b008aa06865b0dfb","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 1, Pp 1-13 (2019)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:5363296","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6367773","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"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":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12859-019-2654-3","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-019-2654-3","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-019-2654-3","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":[{"id":"https://metadata.un.org/sdg/3","score":0.6600000262260437,"display_name":"Good health and well-being"}],"awards":[{"id":"https://openalex.org/G1342612824","display_name":"MicroRNA\u5bf9\u57fa\u56e0\u7684\u8c03\u63a7\u4f5c\u7528\u53ca\u5176\u4e0e\u75be\u75c5\u5173\u8054\u5173\u7cfb\u7684\u8ba1\u7b97\u65b9\u6cd5\u7814\u7a76","funder_award_id":"61873089","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G1601350730","display_name":null,"funder_award_id":"2018JJ2024","funder_id":"https://openalex.org/F4320322843","funder_display_name":"Natural Science Foundation of\u00a0Hunan Province"},{"id":"https://openalex.org/G1724174098","display_name":null,"funder_award_id":"2018TP1018","funder_id":"https://openalex.org/F4320330206","funder_display_name":"Science and Technology Program of Hunan Province"},{"id":"https://openalex.org/G2889707724","display_name":"\u57fa\u4e8e\u65b0\u4e00\u4ee3\u6d4b\u5e8f\u6570\u636e\u7684\u590d\u6742\u75be\u75c5\u7279\u5f02\u5171\u8c03\u63a7\u7f51\u7edc\u6784\u5efa\u53ca\u5206\u6790\u65b9\u6cd5\u7814\u7a76","funder_award_id":"61572180","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G3764714260","display_name":null,"funder_award_id":"ZR2016FB10","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G3865445004","display_name":null,"funder_award_id":"17A037","funder_id":"https://openalex.org/F4320311213","funder_display_name":"Education Department of Hunan Province"},{"id":"https://openalex.org/G4823595778","display_name":"miRNA-mRNA\u53cc\u5c42\u529f\u80fd\u7f51\u7edc\u5206\u6790\u53ca\u5176\u5728\u590d\u6742\u75be\u75c5\u4e2d\u7684\u5e94\u7528\u7814\u7a76","funder_award_id":"61862025","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5296523094","display_name":null,"funder_award_id":"2018TP1018","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G6045240650","display_name":null,"funder_award_id":"61572180, 61602283","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G6408312576","display_name":null,"funder_award_id":"20181BAB211016","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G6633472649","display_name":null,"funder_award_id":"2018TP1018","funder_id":"https://openalex.org/F4320322843","funder_display_name":"Natural Science Foundation of\u00a0Hunan Province"},{"id":"https://openalex.org/G6878829392","display_name":null,"funder_award_id":"ZR2016FB10","funder_id":"https://openalex.org/F4320324174","funder_display_name":"Natural Science Foundation of Shandong Province"},{"id":"https://openalex.org/G6985401972","display_name":null,"funder_award_id":"2018TP1018","funder_id":"https://openalex.org/F4320311213","funder_display_name":"Education Department of Hunan Province"},{"id":"https://openalex.org/G952884748","display_name":null,"funder_award_id":"61602283","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320311213","display_name":"Education Department of Hunan Province","ror":"https://ror.org/05ckg3w11"},{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320322843","display_name":"Natural Science Foundation of\u00a0Hunan Province","ror":null},{"id":"https://openalex.org/F4320324174","display_name":"Natural Science Foundation of Shandong Province","ror":null},{"id":"https://openalex.org/F4320330206","display_name":"Science and Technology Program of Hunan Province","ror":null}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2919378721.pdf","grobid_xml":"https://content.openalex.org/works/W2919378721.grobid-xml"},"referenced_works_count":63,"referenced_works":["https://openalex.org/W1667789979","https://openalex.org/W1902027874","https://openalex.org/W1966143946","https://openalex.org/W1966498224","https://openalex.org/W1968580628","https://openalex.org/W1972989638","https://openalex.org/W1980397945","https://openalex.org/W1985205042","https://openalex.org/W1995082021","https://openalex.org/W2006556963","https://openalex.org/W2010040849","https://openalex.org/W2010355969","https://openalex.org/W2016106370","https://openalex.org/W2025183726","https://openalex.org/W2026051181","https://openalex.org/W2038667694","https://openalex.org/W2039030056","https://openalex.org/W2043545458","https://openalex.org/W2043920413","https://openalex.org/W2046387002","https://openalex.org/W2049344510","https://openalex.org/W2052852368","https://openalex.org/W2065762479","https://openalex.org/W2077327925","https://openalex.org/W2096529831","https://openalex.org/W2098318517","https://openalex.org/W2105116456","https://openalex.org/W2106030955","https://openalex.org/W2113868616","https://openalex.org/W2116168949","https://openalex.org/W2117977572","https://openalex.org/W2118718620","https://openalex.org/W2125118217","https://openalex.org/W2128034264","https://openalex.org/W2128983843","https://openalex.org/W2130410032","https://openalex.org/W2130687298","https://openalex.org/W2134118500","https://openalex.org/W2138566679","https://openalex.org/W2143693563","https://openalex.org/W2144359569","https://openalex.org/W2147535627","https://openalex.org/W2151196686","https://openalex.org/W2158135353","https://openalex.org/W2165685007","https://openalex.org/W2175378767","https://openalex.org/W2254019636","https://openalex.org/W2258129851","https://openalex.org/W2259477902","https://openalex.org/W2342386646","https://openalex.org/W2415355903","https://openalex.org/W2464460497","https://openalex.org/W2537679995","https://openalex.org/W2557489574","https://openalex.org/W2565218155","https://openalex.org/W2574217686","https://openalex.org/W2590492570","https://openalex.org/W2593731814","https://openalex.org/W2750900465","https://openalex.org/W2909637325","https://openalex.org/W2948726969","https://openalex.org/W3146565636","https://openalex.org/W4318624870"],"related_works":["https://openalex.org/W2400832891","https://openalex.org/W2912601922","https://openalex.org/W3162111133","https://openalex.org/W2913268581","https://openalex.org/W3110530940","https://openalex.org/W2944051466","https://openalex.org/W2128583238","https://openalex.org/W2134405083","https://openalex.org/W2049907435","https://openalex.org/W2034500416"],"abstract_inverted_index":{"BACKGROUND:":[0],"Non-coding":[1],"RNAs":[2,26],"(ncRNAs)":[3],"are":[4,93,172,230],"emerging":[5],"as":[6],"key":[7],"regulators":[8],"and":[9,33,53,69,74,88,110,124,126,152,208,228,233,240],"play":[10],"critical":[11],"roles":[12,80],"in":[13,55,60,236],"a":[14,128],"wide":[15],"range":[16],"of":[17,50,65,81,84,121,252],"tumorigenesis.":[18],"Recent":[19],"studies":[20],"have":[21],"suggested":[22],"that":[23,221],"long":[24],"non-coding":[25],"(lncRNAs)":[27],"could":[28],"interact":[29],"with":[30],"microRNAs":[31],"(miRNAs)":[32],"indirectly":[34],"regulate":[35],"miRNA":[36,109],"targets":[37],"through":[38,165],"competing":[39,44],"interactions.":[40],"Therefore,":[41],"uncovering":[42],"the":[43,62,78,117,143,148,153,162,166,193,222,248,256],"endogenous":[45],"RNA":[46],"(ceRNA)":[47],"regulatory":[48,112,250],"mechanism":[49,251],"lncRNAs,":[51,122,226],"miRNAs":[52,123,227],"mRNAs":[54,125,229],"post-transcriptional":[56],"level":[57],"will":[58],"aid":[59],"deciphering":[61],"underlying":[63],"pathogenesis":[64],"human":[66,253],"polygenic":[67],"diseases":[68,254],"may":[70,243],"unveil":[71],"new":[72,245],"diagnostic":[73],"therapeutic":[75],"opportunities.":[76],"However,":[77],"functional":[79],"vast":[82],"majority":[83],"cancer":[85,202,206],"specific":[86],"ncRNAs":[87],"their":[89],"combinational":[90],"regulation":[91],"patterns":[92],"still":[94],"insufficiently":[95],"understood.":[96],"RESULTS:":[97],"Here":[98],"we":[99,141],"develop":[100],"an":[101,184],"integrative":[102],"framework":[103,159],"called":[104],"CeModule":[105,199],"to":[106,160,175,191,200],"discover":[107],"lncRNA,":[108],"mRNA-associated":[111],"modules.":[113,139],"We":[114,197],"fully":[115],"utilize":[116],"matched":[118],"expression":[119],"profiles":[120],"establish":[127],"model":[129,178],"based":[130],"on":[131],"joint":[132],"orthogonality":[133],"non-negative":[134],"matrix":[135],"factorization":[136],"for":[137],"identifying":[138],"Meanwhile,":[140],"impose":[142],"experimentally":[144],"verified":[145],"miRNA-lncRNA":[146],"interactions,":[147],"validated":[149],"miRNA-mRNA":[150],"interactions":[151],"weighted":[154],"gene-gene":[155],"network":[156],"into":[157,247],"this":[158,177],"improve":[161],"module":[163],"accuracy":[164],"network-based":[167],"penalties.":[168],"The":[169,217],"sparse":[170,181],"regularizations":[171],"also":[173],"used":[174],"help":[176],"obtain":[179],"modular":[180,218],"solutions.":[182],"Finally,":[183],"iterative":[185],"multiplicative":[186],"updating":[187],"algorithm":[188],"is":[189],"adopted":[190],"solve":[192],"optimization":[194],"problem.":[195],"CONCLUSIONS:":[196],"applied":[198],"two":[201],"datasets":[203],"including":[204],"ovarian":[205],"(OV)":[207],"uterine":[209],"corpus":[210],"endometrial":[211],"carcinoma":[212],"(UCEC)":[213],"obtained":[214],"from":[215],"TCGA.":[216],"analysis":[219],"indicated":[220],"identified":[223],"modules":[224],"involving":[225],"significantly":[231],"associated":[232],"functionally":[234],"enriched":[235],"cancer-related":[237],"biological":[238],"processes":[239],"pathways,":[241],"which":[242],"provide":[244],"insights":[246],"complex":[249],"at":[255],"system":[257],"level.":[258]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":4},{"year":2021,"cited_by_count":4},{"year":2020,"cited_by_count":6},{"year":2019,"cited_by_count":3}],"updated_date":"2026-06-19T15:47:20.252518","created_date":"2025-10-10T00:00:00"}
