{"id":"https://openalex.org/W2134901391","doi":"https://doi.org/10.1093/bib/bbr032","title":"How to cluster gene expression dynamics in response to environmental signals","display_name":"How to cluster gene expression dynamics in response to environmental signals","publication_year":2011,"publication_date":"2011-07-10","ids":{"openalex":"https://openalex.org/W2134901391","doi":"https://doi.org/10.1093/bib/bbr032","mag":"2134901391","pmid":"https://pubmed.ncbi.nlm.nih.gov/21746694"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbr032","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbr032","pdf_url":"https://academic.oup.com/bib/article-pdf/13/2/162/702388/bbr032.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bib/article-pdf/13/2/162/702388/bbr032.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5114778077","display_name":"Yujie Wang","orcid":"https://orcid.org/0000-0003-3955-6359"},"institutions":[{"id":"https://openalex.org/I130769515","display_name":"Pennsylvania State University","ror":"https://ror.org/04p491231","country_code":"US","type":"education","lineage":["https://openalex.org/I130769515"]},{"id":"https://openalex.org/I82783531","display_name":"Penn State Milton S. Hershey Medical Center","ror":"https://ror.org/01h22ap11","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I82783531"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Y. Wang","raw_affiliation_strings":["Department of Statistics, Pennsylvania State University, Hershey, PA 17033, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Statistics, Pennsylvania State University, Hershey, PA 17033, USA","institution_ids":["https://openalex.org/I82783531","https://openalex.org/I130769515"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101583527","display_name":"Meng Xu","orcid":"https://orcid.org/0000-0001-9964-1390"},"institutions":[{"id":"https://openalex.org/I167027274","display_name":"Nanjing Forestry University","ror":"https://ror.org/03m96p165","country_code":"CN","type":"education","lineage":["https://openalex.org/I167027274"]},{"id":"https://openalex.org/I4210118410","display_name":"Institut th\u00e9matique G\u00e9n\u00e9tique, g\u00e9nomique et bioinformatique","ror":"https://ror.org/01rfstj90","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488","https://openalex.org/I4210118410"]}],"countries":["CN","FR"],"is_corresponding":false,"raw_author_name":"M. Xu","raw_affiliation_strings":["Meng Xu obtained his PhD in Forest Genetics at Nanjing Forestry University in 2008 and is now Assistant Professor of Forest Genetics and Genomics at the same university. From 2009 to 2010, he was a post-doctoral scientist in the Center for Statistical Genetics, The Pennsylvania State University. His research interest is in the experimental identification of genes and genetic interactions involved in plant growth, development and adaptation to changing environments","Nanjing Forestry University"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Meng Xu obtained his PhD in Forest Genetics at Nanjing Forestry University in 2008 and is now Assistant Professor of Forest Genetics and Genomics at the same university. From 2009 to 2010, he was a post-doctoral scientist in the Center for Statistical Genetics, The Pennsylvania State University. His research interest is in the experimental identification of genes and genetic interactions involved in plant growth, development and adaptation to changing environments","institution_ids":["https://openalex.org/I4210118410"]},{"raw_affiliation_string":"Nanjing Forestry University","institution_ids":["https://openalex.org/I167027274"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5034711230","display_name":"Zhenning Wang","orcid":"https://orcid.org/0000-0003-0557-3097"},"institutions":[{"id":"https://openalex.org/I130769515","display_name":"Pennsylvania State University","ror":"https://ror.org/04p491231","country_code":"US","type":"education","lineage":["https://openalex.org/I130769515"]},{"id":"https://openalex.org/I4210157790","display_name":"Statistical Research (United States)","ror":"https://ror.org/058eg8775","country_code":"US","type":"company","lineage":["https://openalex.org/I4210157790"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Z. Wang","raw_affiliation_strings":["Zhong Wang obtained his PhD in Engineering Mechanics at Dalian University of Technology in 2000. He found and managed a software company in Japan from 2000 to 2008. He is a post-doctoral researcher in the Center for Statistical Genetics at the Pennsylvania State University. He writes computer software for statistical genetic models","Pennsylvania State Univ#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Zhong Wang obtained his PhD in Engineering Mechanics at Dalian University of Technology in 2000. He found and managed a software company in Japan from 2000 to 2008. He is a post-doctoral researcher in the Center for Statistical Genetics at the Pennsylvania State University. He writes computer software for statistical genetic models","institution_ids":["https://openalex.org/I4210157790"]},{"raw_affiliation_string":"Pennsylvania State Univ#TAB#","institution_ids":["https://openalex.org/I130769515"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100654768","display_name":"Tao Ma","orcid":"https://orcid.org/0000-0002-7094-6868"},"institutions":[{"id":"https://openalex.org/I2801851002","display_name":"Harvard University Press","ror":"https://ror.org/006v7bf86","country_code":"US","type":"other","lineage":["https://openalex.org/I136199984","https://openalex.org/I2801851002"]},{"id":"https://openalex.org/I4210122310","display_name":"Innovation Research Center","ror":"https://ror.org/02sdeme12","country_code":"US","type":"facility","lineage":["https://openalex.org/I4210122310"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"M. Tao","raw_affiliation_strings":["Ming Tao obtained her MD at Peking University Health Science Center (Beijing Medical School) in 1988 and MPH at Xian Medical School of Jiaotong University in 2001. She was Senior Biological Scientist in the Division of Vascular Surgery at the University of Florida. She has now relocated to the Division of Vascular Surgery at Brigham and Women\u2019s Hospital/Harvard Medical School as a research specialist. Her research interest is in vascular biology and experimental genetics and genomics","Harvard University"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Ming Tao obtained her MD at Peking University Health Science Center (Beijing Medical School) in 1988 and MPH at Xian Medical School of Jiaotong University in 2001. She was Senior Biological Scientist in the Division of Vascular Surgery at the University of Florida. She has now relocated to the Division of Vascular Surgery at Brigham and Women\u2019s Hospital/Harvard Medical School as a research specialist. Her research interest is in vascular biology and experimental genetics and genomics","institution_ids":["https://openalex.org/I4210122310"]},{"raw_affiliation_string":"Harvard University","institution_ids":["https://openalex.org/I2801851002"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101574328","display_name":"Jun Zhu","orcid":"https://orcid.org/0000-0002-9427-4517"},"institutions":[{"id":"https://openalex.org/I130769515","display_name":"Pennsylvania State University","ror":"https://ror.org/04p491231","country_code":"US","type":"education","lineage":["https://openalex.org/I130769515"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"J. Zhu","raw_affiliation_strings":["Junjia Zhu obtained his PhD in Statistics at the Pennsylvania State University in 2008. He was Assistant Professor in the Department of Mathematics and Computer Sciences at the Penn State Harrisburg from 2008 to 2010 and is currently Assistant Professor in the Division of Biostatistics in the Department of Public Health Sciences at the Pennsylvania State College of Medicine, Hershey. His research interest is in computational statistics and statistical applications, particularly in modeling human diseases","Department of Public Health Sciences"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Junjia Zhu obtained his PhD in Statistics at the Pennsylvania State University in 2008. He was Assistant Professor in the Department of Mathematics and Computer Sciences at the Penn State Harrisburg from 2008 to 2010 and is currently Assistant Professor in the Division of Biostatistics in the Department of Public Health Sciences at the Pennsylvania State College of Medicine, Hershey. His research interest is in computational statistics and statistical applications, particularly in modeling human diseases","institution_ids":["https://openalex.org/I130769515"]},{"raw_affiliation_string":"Department of Public Health Sciences","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100402244","display_name":"Liping Wang","orcid":"https://orcid.org/0000-0001-7660-7288"},"institutions":[{"id":"https://openalex.org/I870398029","display_name":"Center for Excellence in Education","ror":"https://ror.org/03qhz4n98","country_code":"US","type":"education","lineage":["https://openalex.org/I870398029"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"L. Wang","raw_affiliation_strings":["Li Wang obtained her MS in Statistics in 2007 and PhD in Economics in 2008 from the Pennsylvania State University. She is an Assistant Professor in the Division of Health Services Research in the Department of Public Health Sciences at the Penn State College of Medicine, Hershey. Her research interest is in statistical analysis and modeling of health data","Department of Public Health Sciences"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Li Wang obtained her MS in Statistics in 2007 and PhD in Economics in 2008 from the Pennsylvania State University. She is an Assistant Professor in the Division of Health Services Research in the Department of Public Health Sciences at the Penn State College of Medicine, Hershey. Her research interest is in statistical analysis and modeling of health data","institution_ids":["https://openalex.org/I870398029"]},{"raw_affiliation_string":"Department of Public Health Sciences","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100721408","display_name":"Runze Li","orcid":"https://orcid.org/0000-0002-0154-2202"},"institutions":[{"id":"https://openalex.org/I4210163794","display_name":"Data Management (Italy)","ror":"https://ror.org/017j5za44","country_code":"IT","type":"company","lineage":["https://openalex.org/I4210163794"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"R. Li","raw_affiliation_strings":["Runze Li obtained his PhD in Statistics at the University of North Carolina at Chapel Hill in 2000. He is currently Professor in the Department of Statistics at The Pennsylvania State University. His research interest spans a wide area of theoretical and applied statistics, especially in longitudinal data analysis, high-dimension data modeling and analysis and statistical genetics","Statistics"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Runze Li obtained his PhD in Statistics at the University of North Carolina at Chapel Hill in 2000. He is currently Professor in the Department of Statistics at The Pennsylvania State University. His research interest spans a wide area of theoretical and applied statistics, especially in longitudinal data analysis, high-dimension data modeling and analysis and statistical genetics","institution_ids":["https://openalex.org/I4210163794"]},{"raw_affiliation_string":"Statistics","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014730726","display_name":"Scott A. Berceli","orcid":"https://orcid.org/0000-0003-2257-0111"},"institutions":[{"id":"https://openalex.org/I33213144","display_name":"University of Florida","ror":"https://ror.org/02y3ad647","country_code":"US","type":"education","lineage":["https://openalex.org/I33213144"]},{"id":"https://openalex.org/I4210124306","display_name":"The Centers","ror":"https://ror.org/033tgbx59","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210124306"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"S. A. Berceli","raw_affiliation_strings":["Scott Berceli obtained his PhD in Chemical Engineering at University of Pittsburgh in 1993. He is Professor in the Division of Vascular Surgery at the University of Florida. His research interest is to develop multiple interventional strategies for treating patients with clinically significant arterial stenoses. His current program centers on the pioneering use of interdisciplinary tools to study the genetic control of vascular remodeling","[University of Florida]"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Scott Berceli obtained his PhD in Chemical Engineering at University of Pittsburgh in 1993. He is Professor in the Division of Vascular Surgery at the University of Florida. His research interest is to develop multiple interventional strategies for treating patients with clinically significant arterial stenoses. His current program centers on the pioneering use of interdisciplinary tools to study the genetic control of vascular remodeling","institution_ids":["https://openalex.org/I4210124306"]},{"raw_affiliation_string":"[University of Florida]","institution_ids":["https://openalex.org/I33213144"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5031422180","display_name":"Rongling Wu","orcid":"https://orcid.org/0000-0001-8350-7779"},"institutions":[{"id":"https://openalex.org/I4210152479","display_name":"Statistical Service","ror":"https://ror.org/05vydvf11","country_code":"CY","type":"government","lineage":["https://openalex.org/I4210152479"]}],"countries":["CY"],"is_corresponding":false,"raw_author_name":"R. Wu","raw_affiliation_strings":["Rongling Wu obtained his PhD in Quantitative Genetics at the University of Washington in 1995. He is Professor and Director of the Center for Statistical Genetics, The Pennsylvania State University. During the past decade, Dr Wu has developed a handful of statistical models and computational algorithms that have been widely used to identify genes and gene expression involved in the phenotypic variation of complex traits and processes","Department of Public Health Sciences"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Rongling Wu obtained his PhD in Quantitative Genetics at the University of Washington in 1995. He is Professor and Director of the Center for Statistical Genetics, The Pennsylvania State University. During the past decade, Dr Wu has developed a handful of statistical models and computational algorithms that have been widely used to identify genes and gene expression involved in the phenotypic variation of complex traits and processes","institution_ids":["https://openalex.org/I4210152479"]},{"raw_affiliation_string":"Department of Public Health Sciences","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":5,"institutions_distinct_count":12,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":1.5738,"has_fulltext":true,"cited_by_count":59,"citation_normalized_percentile":{"value":0.8277269,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":99},"biblio":{"volume":"13","issue":"2","first_page":"162","last_page":"174"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.9968000054359436,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.9968000054359436,"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/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9908000230789185,"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/T11482","display_name":"RNA modifications and cancer","score":0.988099992275238,"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/cluster-analysis","display_name":"Cluster analysis","score":0.6796098947525024},{"id":"https://openalex.org/keywords/expression","display_name":"Expression (computer science)","score":0.6018149852752686},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.57695472240448},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.5740643739700317},{"id":"https://openalex.org/keywords/gene-cluster","display_name":"Gene cluster","score":0.5166454911231995},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.4981670379638672},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4959815442562103},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.49014315009117126},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.46416667103767395},{"id":"https://openalex.org/keywords/gaussian","display_name":"Gaussian","score":0.44269415736198425},{"id":"https://openalex.org/keywords/complement","display_name":"Complement (music)","score":0.44223445653915405},{"id":"https://openalex.org/keywords/regulation-of-gene-expression","display_name":"Regulation of gene expression","score":0.4387422204017639},{"id":"https://openalex.org/keywords/trajectory","display_name":"Trajectory","score":0.4127557575702667},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3983783423900604},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.27063608169555664},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.1785670518875122},{"id":"https://openalex.org/keywords/phenotype","display_name":"Phenotype","score":0.14568665623664856},{"id":"https://openalex.org/keywords/ecology","display_name":"Ecology","score":0.10505422949790955}],"concepts":[{"id":"https://openalex.org/C73555534","wikidata":"https://www.wikidata.org/wiki/Q622825","display_name":"Cluster analysis","level":2,"score":0.6796098947525024},{"id":"https://openalex.org/C90559484","wikidata":"https://www.wikidata.org/wiki/Q778379","display_name":"Expression (computer science)","level":2,"score":0.6018149852752686},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.57695472240448},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.5740643739700317},{"id":"https://openalex.org/C36857842","wikidata":"https://www.wikidata.org/wiki/Q1501261","display_name":"Gene cluster","level":3,"score":0.5166454911231995},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.4981670379638672},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4959815442562103},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.49014315009117126},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.46416667103767395},{"id":"https://openalex.org/C163716315","wikidata":"https://www.wikidata.org/wiki/Q901177","display_name":"Gaussian","level":2,"score":0.44269415736198425},{"id":"https://openalex.org/C112313634","wikidata":"https://www.wikidata.org/wiki/Q7886648","display_name":"Complement (music)","level":5,"score":0.44223445653915405},{"id":"https://openalex.org/C165864922","wikidata":"https://www.wikidata.org/wiki/Q411391","display_name":"Regulation of gene expression","level":3,"score":0.4387422204017639},{"id":"https://openalex.org/C13662910","wikidata":"https://www.wikidata.org/wiki/Q193139","display_name":"Trajectory","level":2,"score":0.4127557575702667},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3983783423900604},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.27063608169555664},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.1785670518875122},{"id":"https://openalex.org/C127716648","wikidata":"https://www.wikidata.org/wiki/Q104053","display_name":"Phenotype","level":3,"score":0.14568665623664856},{"id":"https://openalex.org/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"score":0.10505422949790955},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0},{"id":"https://openalex.org/C1276947","wikidata":"https://www.wikidata.org/wiki/Q333","display_name":"Astronomy","level":1,"score":0.0},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C188082640","wikidata":"https://www.wikidata.org/wiki/Q1780899","display_name":"Complementation","level":4,"score":0.0}],"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":"D002454","descriptor_name":"Cell Differentiation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002454","descriptor_name":"Cell Differentiation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002454","descriptor_name":"Cell Differentiation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015870","descriptor_name":"Gene Expression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015870","descriptor_name":"Gene Expression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015870","descriptor_name":"Gene Expression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"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":"D059647","descriptor_name":"Gene-Environment Interaction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059647","descriptor_name":"Gene-Environment Interaction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059647","descriptor_name":"Gene-Environment Interaction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1093/bib/bbr032","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbr032","pdf_url":"https://academic.oup.com/bib/article-pdf/13/2/162/702388/bbr032.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:21746694","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/21746694","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":"Briefings in bioinformatics","raw_type":null},{"id":"pmh:oai:europepmc.org:2582127","is_oa":false,"landing_page_url":"http://europepmc.org/articles/PMC3294239","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:3294239","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3294239","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Brief Bioinform","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bib/bbr032","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbr032","pdf_url":"https://academic.oup.com/bib/article-pdf/13/2/162/702388/bbr032.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.47999998927116394,"display_name":"Life in Land","id":"https://metadata.un.org/sdg/15"}],"awards":[{"id":"https://openalex.org/G2670079809","display_name":null,"funder_award_id":"R21 DA024260","funder_id":"https://openalex.org/F4320337347","funder_display_name":"National Institute on Drug Abuse"},{"id":"https://openalex.org/G2707742091","display_name":null,"funder_award_id":"UL1 TR000064","funder_id":"https://openalex.org/F4320337472","funder_display_name":"National Center for Advancing Translational Sciences"},{"id":"https://openalex.org/G3604476410","display_name":null,"funder_award_id":"R01 HL095508","funder_id":"https://openalex.org/F4320337338","funder_display_name":"National Heart, Lung, and Blood Institute"},{"id":"https://openalex.org/G5001615025","display_name":null,"funder_award_id":"R21-DA024260","funder_id":"https://openalex.org/F4320337347","funder_display_name":"National Institute on Drug Abuse"},{"id":"https://openalex.org/G5214377209","display_name":null,"funder_award_id":"P50 DA010075","funder_id":"https://openalex.org/F4320337347","funder_display_name":"National Institute on Drug Abuse"},{"id":"https://openalex.org/G8048409205","display_name":null,"funder_award_id":"P50-DA10075","funder_id":"https://openalex.org/F4320337347","funder_display_name":"National Institute on Drug Abuse"}],"funders":[{"id":"https://openalex.org/F4320337338","display_name":"National Heart, Lung, and Blood Institute","ror":"https://ror.org/012pb6c26"},{"id":"https://openalex.org/F4320337347","display_name":"National Institute on Drug Abuse","ror":"https://ror.org/00fq5cm18"},{"id":"https://openalex.org/F4320337472","display_name":"National Center for Advancing Translational Sciences","ror":"https://ror.org/04pw6fb54"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2134901391.pdf","grobid_xml":"https://content.openalex.org/works/W2134901391.grobid-xml"},"referenced_works_count":65,"referenced_works":["https://openalex.org/W583021201","https://openalex.org/W1502621380","https://openalex.org/W1559242465","https://openalex.org/W1580314301","https://openalex.org/W1635484243","https://openalex.org/W1757837788","https://openalex.org/W1963713509","https://openalex.org/W1965999112","https://openalex.org/W1968676313","https://openalex.org/W1969289662","https://openalex.org/W1972130972","https://openalex.org/W1974821552","https://openalex.org/W1976253926","https://openalex.org/W1987144436","https://openalex.org/W1991338473","https://openalex.org/W1997839385","https://openalex.org/W2009559661","https://openalex.org/W2021987914","https://openalex.org/W2022098233","https://openalex.org/W2029485495","https://openalex.org/W2033854766","https://openalex.org/W2034637902","https://openalex.org/W2038225430","https://openalex.org/W2041098124","https://openalex.org/W2041440829","https://openalex.org/W2046377871","https://openalex.org/W2056218698","https://openalex.org/W2057838299","https://openalex.org/W2061974849","https://openalex.org/W2062725912","https://openalex.org/W2075756703","https://openalex.org/W2075983187","https://openalex.org/W2078140686","https://openalex.org/W2087261484","https://openalex.org/W2094991212","https://openalex.org/W2097520363","https://openalex.org/W2103453943","https://openalex.org/W2105581244","https://openalex.org/W2105712639","https://openalex.org/W2106045204","https://openalex.org/W2108539011","https://openalex.org/W2109748507","https://openalex.org/W2110427480","https://openalex.org/W2113654344","https://openalex.org/W2114019432","https://openalex.org/W2114123573","https://openalex.org/W2119353670","https://openalex.org/W2120169559","https://openalex.org/W2125979918","https://openalex.org/W2129297473","https://openalex.org/W2133467365","https://openalex.org/W2140949164","https://openalex.org/W2140971281","https://openalex.org/W2145798475","https://openalex.org/W2145816995","https://openalex.org/W2159578516","https://openalex.org/W2161147419","https://openalex.org/W2163856173","https://openalex.org/W2167863430","https://openalex.org/W2168525657","https://openalex.org/W2168612308","https://openalex.org/W2278685458","https://openalex.org/W2313953460","https://openalex.org/W3124846677","https://openalex.org/W4235549791"],"related_works":["https://openalex.org/W4323768008","https://openalex.org/W2382566571","https://openalex.org/W3131574667","https://openalex.org/W4248382324","https://openalex.org/W4360995134","https://openalex.org/W2387529410","https://openalex.org/W2349321798","https://openalex.org/W2366686860","https://openalex.org/W2039473718","https://openalex.org/W3023605104"],"abstract_inverted_index":{"Organisms":[0],"usually":[1],"cope":[2],"with":[3],"change":[4],"in":[5,34,64,98,113,147],"the":[6,10,18,42,59,72,92,118],"environment":[7],"by":[8],"altering":[9],"dynamic":[11,95,142],"trajectory":[12],"of":[13,20,25,28,45,61,79,87,94,110,115,117,131,141],"gene":[14,62,96,111,143],"expression":[15,31,63,73,97,144],"to":[16,36,40,71,137],"adjust":[17],"complement":[19],"active":[21],"proteins.":[22],"The":[23,107],"identification":[24],"particular":[26],"sets":[27],"genes":[29],"whose":[30],"is":[32],"adaptive":[33],"response":[35],"environmental":[37],"changes":[38],"helps":[39],"understand":[41],"mechanistic":[43],"base":[44],"gene-environment":[46,102],"interactions":[47,103],"essential":[48],"for":[49,57],"organismic":[50],"development.":[51],"We":[52,83,127],"describe":[53],"a":[54,77,85,129],"computational":[55,132],"framework":[56],"clustering":[58,112],"dynamics":[60],"distinct":[65],"environments":[66,100],"through":[67],"Gaussian":[68],"mixture":[69],"fitting":[70],"data":[74,145],"measured":[75,146],"at":[76],"set":[78,130],"discrete":[80],"time":[81],"points.":[82],"outline":[84],"number":[86],"quantitative":[88],"testable":[89],"hypotheses":[90],"about":[91],"patterns":[93],"changing":[99],"and":[101,122,139],"causing":[104],"developmental":[105],"differentiation.":[106],"future":[108],"directions":[109],"terms":[114],"incorporations":[116],"latest":[119],"biological":[120],"discoveries":[121],"statistical":[123],"innovations":[124],"are":[125,135],"discussed.":[126],"provide":[128],"tools":[133],"that":[134],"applicable":[136],"modeling":[138],"analysis":[140],"multiple":[148],"environments.":[149]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":5},{"year":2022,"cited_by_count":3},{"year":2021,"cited_by_count":10},{"year":2020,"cited_by_count":3},{"year":2019,"cited_by_count":4},{"year":2018,"cited_by_count":4},{"year":2017,"cited_by_count":7},{"year":2015,"cited_by_count":2},{"year":2014,"cited_by_count":5},{"year":2013,"cited_by_count":2},{"year":2012,"cited_by_count":5}],"updated_date":"2026-07-06T08:01:05.025921","created_date":"2025-10-10T00:00:00"}
