{"id":"https://openalex.org/W2554705260","doi":"https://doi.org/10.1186/s12918-016-0349-1","title":"DGCA: A comprehensive R package for Differential Gene Correlation Analysis","display_name":"DGCA: A comprehensive R package for Differential Gene Correlation Analysis","publication_year":2016,"publication_date":"2016-11-15","ids":{"openalex":"https://openalex.org/W2554705260","doi":"https://doi.org/10.1186/s12918-016-0349-1","mag":"2554705260","pmid":"https://pubmed.ncbi.nlm.nih.gov/27846853"},"language":"en","primary_location":{"id":"doi:10.1186/s12918-016-0349-1","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12918-016-0349-1","pdf_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/s12918-016-0349-1","source":{"id":"https://openalex.org/S92363890","display_name":"BMC Systems Biology","issn_l":"1752-0509","issn":["1752-0509"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","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 Systems Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"diamond","oa_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/s12918-016-0349-1","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5053794069","display_name":"Andrew McKenzie","orcid":"https://orcid.org/0000-0001-7462-4340"},"institutions":[{"id":"https://openalex.org/I1324220072","display_name":"Mount Sinai Hospital","ror":"https://ror.org/01zkyz108","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1320796813","https://openalex.org/I1324220072"]},{"id":"https://openalex.org/I98704320","display_name":"Icahn School of Medicine at Mount Sinai","ror":"https://ror.org/04a9tmd77","country_code":"US","type":"education","lineage":["https://openalex.org/I1320796813","https://openalex.org/I98704320"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Andrew T. McKenzie","raw_affiliation_strings":["Department of Genetics and Genomic Sciences, Icahn School of Medicine at Mount Sinai, One Gustave L. Levy Place, New York, NY, 10029, USA","Icahn Institute of Genomics and Multiscale Biology, Icahn School of Medicine at Mount Sinai, One Gustave L. Levy Place, New York, NY, 10029, USA","Medical Scientist Training Program, Icahn School of Medicine at Mount Sinai, One Gustave L. Levy Place, New York, NY, 10029, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Genetics and Genomic Sciences, Icahn School of Medicine at Mount Sinai, One Gustave L. Levy Place, New York, NY, 10029, USA","institution_ids":["https://openalex.org/I98704320"]},{"raw_affiliation_string":"Icahn Institute of Genomics and Multiscale Biology, Icahn School of Medicine at Mount Sinai, One Gustave L. Levy Place, New York, NY, 10029, USA","institution_ids":["https://openalex.org/I98704320"]},{"raw_affiliation_string":"Medical Scientist Training Program, Icahn School of Medicine at Mount Sinai, One Gustave L. Levy Place, New York, NY, 10029, USA","institution_ids":["https://openalex.org/I98704320","https://openalex.org/I1324220072"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5008476490","display_name":"Igor Katsyv","orcid":null},"institutions":[{"id":"https://openalex.org/I1324220072","display_name":"Mount Sinai Hospital","ror":"https://ror.org/01zkyz108","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1320796813","https://openalex.org/I1324220072"]},{"id":"https://openalex.org/I98704320","display_name":"Icahn School of Medicine at Mount Sinai","ror":"https://ror.org/04a9tmd77","country_code":"US","type":"education","lineage":["https://openalex.org/I1320796813","https://openalex.org/I98704320"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Igor Katsyv","raw_affiliation_strings":["Department of Genetics and Genomic Sciences, Icahn School of Medicine at Mount Sinai, One Gustave L. Levy Place, New York, NY, 10029, USA","Icahn Institute of Genomics and Multiscale Biology, Icahn School of Medicine at Mount Sinai, One Gustave L. Levy Place, New York, NY, 10029, USA","Medical Scientist Training Program, Icahn School of Medicine at Mount Sinai, One Gustave L. Levy Place, New York, NY, 10029, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Genetics and Genomic Sciences, Icahn School of Medicine at Mount Sinai, One Gustave L. Levy Place, New York, NY, 10029, USA","institution_ids":["https://openalex.org/I98704320"]},{"raw_affiliation_string":"Icahn Institute of Genomics and Multiscale Biology, Icahn School of Medicine at Mount Sinai, One Gustave L. Levy Place, New York, NY, 10029, USA","institution_ids":["https://openalex.org/I98704320"]},{"raw_affiliation_string":"Medical Scientist Training Program, Icahn School of Medicine at Mount Sinai, One Gustave L. Levy Place, New York, NY, 10029, USA","institution_ids":["https://openalex.org/I98704320","https://openalex.org/I1324220072"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5112381514","display_name":"Won-Min Song","orcid":null},"institutions":[{"id":"https://openalex.org/I98704320","display_name":"Icahn School of Medicine at Mount Sinai","ror":"https://ror.org/04a9tmd77","country_code":"US","type":"education","lineage":["https://openalex.org/I1320796813","https://openalex.org/I98704320"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Won-Min Song","raw_affiliation_strings":["Department of Genetics and Genomic Sciences, Icahn School of Medicine at Mount Sinai, One Gustave L. Levy Place, New York, NY, 10029, USA","Icahn Institute of Genomics and Multiscale Biology, Icahn School of Medicine at Mount Sinai, One Gustave L. Levy Place, New York, NY, 10029, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Genetics and Genomic Sciences, Icahn School of Medicine at Mount Sinai, One Gustave L. Levy Place, New York, NY, 10029, USA","institution_ids":["https://openalex.org/I98704320"]},{"raw_affiliation_string":"Icahn Institute of Genomics and Multiscale Biology, Icahn School of Medicine at Mount Sinai, One Gustave L. Levy Place, New York, NY, 10029, USA","institution_ids":["https://openalex.org/I98704320"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100376896","display_name":"Minghui Wang","orcid":"https://orcid.org/0000-0001-9171-4962"},"institutions":[{"id":"https://openalex.org/I98704320","display_name":"Icahn School of Medicine at Mount Sinai","ror":"https://ror.org/04a9tmd77","country_code":"US","type":"education","lineage":["https://openalex.org/I1320796813","https://openalex.org/I98704320"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Minghui Wang","raw_affiliation_strings":["Department of Genetics and Genomic Sciences, Icahn School of Medicine at Mount Sinai, One Gustave L. Levy Place, New York, NY, 10029, USA","Icahn Institute of Genomics and Multiscale Biology, Icahn School of Medicine at Mount Sinai, One Gustave L. Levy Place, New York, NY, 10029, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Genetics and Genomic Sciences, Icahn School of Medicine at Mount Sinai, One Gustave L. Levy Place, New York, NY, 10029, USA","institution_ids":["https://openalex.org/I98704320"]},{"raw_affiliation_string":"Icahn Institute of Genomics and Multiscale Biology, Icahn School of Medicine at Mount Sinai, One Gustave L. Levy Place, New York, NY, 10029, USA","institution_ids":["https://openalex.org/I98704320"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100392884","display_name":"Bin Zhang","orcid":"https://orcid.org/0000-0002-9549-5653"},"institutions":[{"id":"https://openalex.org/I98704320","display_name":"Icahn School of Medicine at Mount Sinai","ror":"https://ror.org/04a9tmd77","country_code":"US","type":"education","lineage":["https://openalex.org/I1320796813","https://openalex.org/I98704320"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Bin Zhang","raw_affiliation_strings":["Department of Genetics & Genomic Sciences, Icahn School of Medicine at Mount Sinai, 1470 Madison Avenue, Room S8-111, New York, NY, 10029, USA. bin.zhang@mssm.edu","Department of Genetics and Genomic Sciences, Icahn School of Medicine at Mount Sinai, One Gustave L. Levy Place, New York, NY, 10029, USA. bin.zhang@mssm.edu","Icahn Institute of Genomics and Multiscale Biology, Icahn School of Medicine at Mount Sinai, One Gustave L. Levy Place, New York, NY, 10029, USA. bin.zhang@mssm.edu","Department of Genetics and Genomic Sciences, Icahn School of Medicine at Mount Sinai, One Gustave L. Levy Place, New York, NY, 10029, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Genetics & Genomic Sciences, Icahn School of Medicine at Mount Sinai, 1470 Madison Avenue, Room S8-111, New York, NY, 10029, USA. bin.zhang@mssm.edu","institution_ids":["https://openalex.org/I98704320"]},{"raw_affiliation_string":"Department of Genetics and Genomic Sciences, Icahn School of Medicine at Mount Sinai, One Gustave L. Levy Place, New York, NY, 10029, USA. bin.zhang@mssm.edu","institution_ids":["https://openalex.org/I98704320"]},{"raw_affiliation_string":"Icahn Institute of Genomics and Multiscale Biology, Icahn School of Medicine at Mount Sinai, One Gustave L. Levy Place, New York, NY, 10029, USA. bin.zhang@mssm.edu","institution_ids":["https://openalex.org/I98704320"]},{"raw_affiliation_string":"Department of Genetics and Genomic Sciences, Icahn School of Medicine at Mount Sinai, One Gustave L. Levy Place, New York, NY, 10029, USA","institution_ids":["https://openalex.org/I98704320"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5100392884"],"corresponding_institution_ids":["https://openalex.org/I98704320"],"apc_list":null,"apc_paid":null,"fwci":6.2516,"has_fulltext":true,"cited_by_count":271,"citation_normalized_percentile":{"value":0.97084596,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":99,"max":100},"biblio":{"volume":"10","issue":"1","first_page":"106","last_page":"106"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.8727999925613403,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.8727999925613403,"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/T10261","display_name":"Genetic Associations and Epidemiology","score":0.03700000047683716,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.026499999687075615,"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/correlation","display_name":"Correlation","score":0.6688403487205505},{"id":"https://openalex.org/keywords/gene-regulatory-network","display_name":"Gene regulatory network","score":0.5794069170951843},{"id":"https://openalex.org/keywords/systems-biology","display_name":"Systems biology","score":0.5218876004219055},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5143238306045532},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5069427490234375},{"id":"https://openalex.org/keywords/differential","display_name":"Differential (mechanical device)","score":0.4909522831439972},{"id":"https://openalex.org/keywords/permutation","display_name":"Permutation (music)","score":0.4499850273132324},{"id":"https://openalex.org/keywords/biological-network","display_name":"Biological network","score":0.4494757056236267},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.4347985088825226},{"id":"https://openalex.org/keywords/cluster-analysis","display_name":"Cluster analysis","score":0.4205547571182251},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.4156484603881836},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.41530752182006836},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.3830001950263977},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.24611657857894897},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.21577325463294983},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.21104642748832703},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.1698230803012848}],"concepts":[{"id":"https://openalex.org/C117220453","wikidata":"https://www.wikidata.org/wiki/Q5172842","display_name":"Correlation","level":2,"score":0.6688403487205505},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.5794069170951843},{"id":"https://openalex.org/C152662350","wikidata":"https://www.wikidata.org/wiki/Q815297","display_name":"Systems biology","level":2,"score":0.5218876004219055},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5143238306045532},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5069427490234375},{"id":"https://openalex.org/C93226319","wikidata":"https://www.wikidata.org/wiki/Q193137","display_name":"Differential (mechanical device)","level":2,"score":0.4909522831439972},{"id":"https://openalex.org/C21308566","wikidata":"https://www.wikidata.org/wiki/Q7169365","display_name":"Permutation (music)","level":2,"score":0.4499850273132324},{"id":"https://openalex.org/C28225019","wikidata":"https://www.wikidata.org/wiki/Q4915005","display_name":"Biological network","level":2,"score":0.4494757056236267},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4347985088825226},{"id":"https://openalex.org/C73555534","wikidata":"https://www.wikidata.org/wiki/Q622825","display_name":"Cluster analysis","level":2,"score":0.4205547571182251},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.4156484603881836},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.41530752182006836},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.3830001950263977},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.24611657857894897},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.21577325463294983},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.21104642748832703},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.1698230803012848},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0},{"id":"https://openalex.org/C2524010","wikidata":"https://www.wikidata.org/wiki/Q8087","display_name":"Geometry","level":1,"score":0.0},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.0},{"id":"https://openalex.org/C24890656","wikidata":"https://www.wikidata.org/wiki/Q82811","display_name":"Acoustics","level":1,"score":0.0},{"id":"https://openalex.org/C146978453","wikidata":"https://www.wikidata.org/wiki/Q3798668","display_name":"Aerospace engineering","level":1,"score":0.0},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0}],"mesh":[{"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":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011960","descriptor_name":"Receptors, Estrogen","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011960","descriptor_name":"Receptors, Estrogen","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011960","descriptor_name":"Receptors, Estrogen","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011960","descriptor_name":"Receptors, Estrogen","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016159","descriptor_name":"Tumor Suppressor Protein p53","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016159","descriptor_name":"Tumor Suppressor Protein p53","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016159","descriptor_name":"Tumor Suppressor Protein p53","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016159","descriptor_name":"Tumor Suppressor Protein p53","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016159","descriptor_name":"Tumor Suppressor Protein p53","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D016159","descriptor_name":"Tumor Suppressor Protein p53","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D016159","descriptor_name":"Tumor Suppressor Protein p53","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D016159","descriptor_name":"Tumor Suppressor Protein p53","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":"D020869","descriptor_name":"Gene Expression Profiling","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":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","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":false},{"descriptor_ui":"D051059","descriptor_name":"PTEN Phosphohydrolase","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D051059","descriptor_name":"PTEN Phosphohydrolase","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D051059","descriptor_name":"PTEN Phosphohydrolase","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D051059","descriptor_name":"PTEN Phosphohydrolase","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D051059","descriptor_name":"PTEN Phosphohydrolase","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D051059","descriptor_name":"PTEN Phosphohydrolase","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D051059","descriptor_name":"PTEN Phosphohydrolase","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D051059","descriptor_name":"PTEN Phosphohydrolase","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D064726","descriptor_name":"Triple Negative Breast Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D064726","descriptor_name":"Triple Negative Breast Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D064726","descriptor_name":"Triple Negative Breast Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D064726","descriptor_name":"Triple Negative Breast Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D064726","descriptor_name":"Triple Negative Breast Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D064726","descriptor_name":"Triple Negative Breast Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D064726","descriptor_name":"Triple Negative Breast Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D064726","descriptor_name":"Triple Negative Breast Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1186/s12918-016-0349-1","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12918-016-0349-1","pdf_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/s12918-016-0349-1","source":{"id":"https://openalex.org/S92363890","display_name":"BMC Systems Biology","issn_l":"1752-0509","issn":["1752-0509"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","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 Systems Biology","raw_type":"journal-article"},{"id":"pmid:27846853","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/27846853","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 systems biology","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:5111277","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5111277","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 Syst Biol","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12918-016-0349-1","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12918-016-0349-1","pdf_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/s12918-016-0349-1","source":{"id":"https://openalex.org/S92363890","display_name":"BMC Systems Biology","issn_l":"1752-0509","issn":["1752-0509"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","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 Systems Biology","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Good health and well-being","score":0.5400000214576721,"id":"https://metadata.un.org/sdg/3"}],"awards":[{"id":"https://openalex.org/G211376089","display_name":null,"funder_award_id":"R01AG046170","funder_id":"https://openalex.org/F4320337337","funder_display_name":"National Institute on Aging"},{"id":"https://openalex.org/G2242289689","display_name":null,"funder_award_id":"U01AG052411","funder_id":"https://openalex.org/F4320337337","funder_display_name":"National Institute on Aging"},{"id":"https://openalex.org/G2345671787","display_name":null,"funder_award_id":"RF1AG054014-01","funder_id":"https://openalex.org/F4320337337","funder_display_name":"National Institute on Aging"},{"id":"https://openalex.org/G2746156366","display_name":null,"funder_award_id":"F30 AG052261","funder_id":"https://openalex.org/F4320337337","funder_display_name":"National Institute on Aging"},{"id":"https://openalex.org/G387634293","display_name":null,"funder_award_id":"U01 AG052411","funder_id":"https://openalex.org/F4320337337","funder_display_name":"National Institute on Aging"},{"id":"https://openalex.org/G434761767","display_name":null,"funder_award_id":"U01 AG046170","funder_id":"https://openalex.org/F4320337337","funder_display_name":"National Institute on Aging"},{"id":"https://openalex.org/G5691947487","display_name":null,"funder_award_id":"R01AG046170","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G5867054351","display_name":null,"funder_award_id":"U01AI111598-01","funder_id":"https://openalex.org/F4320337355","funder_display_name":"National Institute of Allergy and Infectious Diseases"},{"id":"https://openalex.org/G6265002015","display_name":null,"funder_award_id":"R01 CA163772","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"},{"id":"https://openalex.org/G6999633092","display_name":null,"funder_award_id":"U01 AI111598","funder_id":"https://openalex.org/F4320337355","funder_display_name":"National Institute of Allergy and Infectious Diseases"},{"id":"https://openalex.org/G7740428256","display_name":null,"funder_award_id":"F30AG052261","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G849583259","display_name":null,"funder_award_id":"S10 OD018522","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G8502369004","display_name":null,"funder_award_id":"R01CA163772","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G8757231533","display_name":null,"funder_award_id":"R01CA163772","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337337","display_name":"National Institute on Aging","ror":"https://ror.org/049v75w11"},{"id":"https://openalex.org/F4320337351","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81"},{"id":"https://openalex.org/F4320337355","display_name":"National Institute of Allergy and Infectious Diseases","ror":"https://ror.org/043z4tv69"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2554705260.pdf","grobid_xml":"https://content.openalex.org/works/W2554705260.grobid-xml"},"referenced_works_count":84,"referenced_works":["https://openalex.org/W1513618424","https://openalex.org/W1533000723","https://openalex.org/W1562811233","https://openalex.org/W1863047586","https://openalex.org/W1963640511","https://openalex.org/W1964895626","https://openalex.org/W1964959571","https://openalex.org/W1968162784","https://openalex.org/W1970285616","https://openalex.org/W1973370947","https://openalex.org/W1974033269","https://openalex.org/W1993509040","https://openalex.org/W1998704502","https://openalex.org/W2001377879","https://openalex.org/W2002963962","https://openalex.org/W2006617902","https://openalex.org/W2015619266","https://openalex.org/W2016140258","https://openalex.org/W2019163875","https://openalex.org/W2033105784","https://openalex.org/W2038173255","https://openalex.org/W2044702943","https://openalex.org/W2060705109","https://openalex.org/W2066506433","https://openalex.org/W2068201305","https://openalex.org/W2069452349","https://openalex.org/W2071501137","https://openalex.org/W2083289626","https://openalex.org/W2084305606","https://openalex.org/W2084831115","https://openalex.org/W2086666696","https://openalex.org/W2086837512","https://openalex.org/W2094366504","https://openalex.org/W2094433138","https://openalex.org/W2095898243","https://openalex.org/W2096283457","https://openalex.org/W2096766502","https://openalex.org/W2101459489","https://openalex.org/W2107454005","https://openalex.org/W2108156593","https://openalex.org/W2110065044","https://openalex.org/W2111024635","https://openalex.org/W2111219940","https://openalex.org/W2111627808","https://openalex.org/W2112287022","https://openalex.org/W2112396116","https://openalex.org/W2114954827","https://openalex.org/W2117598173","https://openalex.org/W2119257707","https://openalex.org/W2121195642","https://openalex.org/W2122686681","https://openalex.org/W2124348926","https://openalex.org/W2124404375","https://openalex.org/W2130410032","https://openalex.org/W2131277831","https://openalex.org/W2131848047","https://openalex.org/W2133210805","https://openalex.org/W2138255346","https://openalex.org/W2138485499","https://openalex.org/W2139294174","https://openalex.org/W2139329624","https://openalex.org/W2144775044","https://openalex.org/W2149566602","https://openalex.org/W2152239989","https://openalex.org/W2158219396","https://openalex.org/W2159422067","https://openalex.org/W2162142051","https://openalex.org/W2163485494","https://openalex.org/W2165133998","https://openalex.org/W2168658936","https://openalex.org/W2171537806","https://openalex.org/W2182189596","https://openalex.org/W2191292005","https://openalex.org/W2200388872","https://openalex.org/W2214074259","https://openalex.org/W2220076906","https://openalex.org/W2321044145","https://openalex.org/W2326265172","https://openalex.org/W2401225309","https://openalex.org/W2419512033","https://openalex.org/W2560367415","https://openalex.org/W3148106702","https://openalex.org/W4237638794","https://openalex.org/W4242404314"],"related_works":["https://openalex.org/W2158714033","https://openalex.org/W78967844","https://openalex.org/W2949927938","https://openalex.org/W3213185671","https://openalex.org/W4210989272","https://openalex.org/W4206945140","https://openalex.org/W4386628104","https://openalex.org/W2029387041","https://openalex.org/W2130939068","https://openalex.org/W3163717165"],"abstract_inverted_index":{"BACKGROUND:":[0],"Dissecting":[1],"the":[2,29,101,121,131,143,156,168,199,218],"regulatory":[3,157,203],"relationships":[4,158,204],"between":[5,33,69,159],"genes":[6,166],"is":[7,25,182,192],"a":[8,59,91,115],"critical":[9],"step":[10],"towards":[11,22],"building":[12],"accurate":[13],"predictive":[14],"models":[15],"of":[16,61,110,140,170,220,233],"biological":[17,226,242],"systems.":[18],"A":[19],"powerful":[20],"approach":[21],"this":[23,44],"end":[24],"to":[26,142,184],"systematically":[27,197],"study":[28,45],"differences":[30],"in":[31,36,104,147,155,167,201,224,240],"correlation":[32,105,112,179,222],"gene":[34,70],"pairs":[35,71],"more":[37],"than":[38],"one":[39],"distinct":[40],"condition.":[41],"RESULTS:":[42],"In":[43],"we":[46,118],"develop":[47],"an":[48,176,193],"R":[49,194],"package,":[50],"DGCA":[51,79,94,127,141,191],"(for":[52],"Differential":[53],"Gene":[54],"Correlation":[55],"Analysis),":[56],"which":[57],"offers":[58],"suite":[60],"tools":[62],"for":[63,135,196],"computing":[64],"and":[65,106,161,163,211,228,238,244],"analyzing":[66],"differential":[67,88,111,137,178,221],"correlations":[68,89],"across":[72],"multiple":[73],"conditions.":[74,207],"To":[75,86],"minimize":[76],"parametric":[77],"assumptions,":[78],"computes":[80],"empirical":[81],"p-values":[82],"via":[83],"permutation":[84],"testing.":[85],"understand":[87],"at":[90],"systems":[92,243],"level,":[93],"performs":[95],"higher-order":[96],"analyses":[97],"such":[98],"as":[99],"measuring":[100],"average":[102],"difference":[103,200],"multiscale":[107],"clustering":[108],"analysis":[109,223],"networks.":[113],"Through":[114],"simulation":[116],"study,":[117],"show":[119],"that":[120,126,181],"straightforward":[122],"z-score":[123],"based":[124],"method":[125],"employs":[128],"significantly":[129],"outperforms":[130],"existing":[132],"alternative":[133],"methods":[134],"calculating":[136],"correlation.":[138],"Application":[139],"TCGA":[144],"RNA-seq":[145],"data":[146],"breast":[148,187],"cancer":[149,188],"not":[150],"only":[151],"identifies":[152],"key":[153],"changes":[154],"TP53":[160],"PTEN":[162],"their":[164],"target":[165],"presence":[169],"inactivating":[171],"mutations,":[172],"but":[173],"also":[174],"reveals":[175],"immune-related":[177],"module":[180],"specific":[183],"triple":[185],"negative":[186],"(TNBC).":[189],"CONCLUSIONS:":[190],"package":[195],"assessing":[198],"gene-gene":[202],"under":[205],"different":[206],"This":[208],"user-friendly,":[209],"effective,":[210],"comprehensive":[212],"software":[213],"tool":[214],"will":[215,230],"greatly":[216],"facilitate":[217],"application":[219],"many":[225],"studies":[227],"thus":[229],"help":[231],"identification":[232],"novel":[234],"signaling":[235],"pathways,":[236],"biomarkers,":[237],"targets":[239],"complex":[241],"diseases.":[245]},"counts_by_year":[{"year":2026,"cited_by_count":10},{"year":2025,"cited_by_count":30},{"year":2024,"cited_by_count":23},{"year":2023,"cited_by_count":33},{"year":2022,"cited_by_count":52},{"year":2021,"cited_by_count":55},{"year":2020,"cited_by_count":29},{"year":2019,"cited_by_count":21},{"year":2018,"cited_by_count":11},{"year":2017,"cited_by_count":7}],"updated_date":"2026-07-15T18:14:33.161393","created_date":"2025-10-10T00:00:00"}