Genome-wide prediction of transcriptional regulatory elements of human promoters using gene expression and promoter analysis data [PDF]
BMC Bioinformatics, 2006 Background A complete understanding of the regulatory mechanisms of gene expression is the next important issue of genomics. Many bioinformaticians have developed methods and algorithms for predicting transcriptional regulatory mechanisms from sequence ...
Kim Seon-Young, Kim YongSung
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3D organization of regulatory elements for transcriptional regulation in Arabidopsis
Genome Biology, 2023 Background Although spatial organization of compartments and topologically associating domains at large scale is relatively well studied, the spatial organization of regulatory elements at fine scale is poorly understood in plants.
Li Deng +14 more
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Localizing transcriptional regulatory elements at the mouse Dlk1 locus.
PLoS ONE, 2012 Much effort has focused recently on determining the mechanisms that control the allele-specific expression of genes subject to genomic imprinting, yet imprinting regulation is only one aspect of configuring appropriate expression of these genes ...
Eric D Rogers +3 more
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BMC Genomics, 2008 Background With the sequence of the Plasmodium falciparum genome and several global mRNA and protein life cycle expression profiling projects now completed, elucidating the underlying networks of transcriptional control important for the progression of ...
Le Roch Karine G +7 more
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Discovery and characterization of human exonic transcriptional regulatory elements.
PLoS ONE, 2012 We sought exonic transcriptional regulatory elements by shotgun cloning human cDNA fragments into luciferase reporter vectors and measuring the resulting expression levels in liver cells.
Arshad H Khan, Andy Lin, Desmond J Smith
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A mutation degree model for the identification of transcriptional regulatory elements [PDF]
BMC Bioinformatics, 2011 Background Current approaches for identifying transcriptional regulatory elements are mainly via the combination of two properties, the evolutionary conservation and the overrepresentation of functional elements in the promoters of co-regulated genes ...
Wang Jin +5 more
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TFCONES: A database of vertebrate transcription factor-encoding genes and their associated conserved noncoding elements [PDF]
BMC Genomics, 2007 Background Transcription factors (TFs) regulate gene transcription and play pivotal roles in various biological processes such as development, cell cycle progression, cell differentiation and tumor suppression.
Brenner Sydney +3 more
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A unified architecture of transcriptional regulatory elements [PDF]
Trends in Genetics, 2015 Abstract Gene expression is precisely controlled in time and space through the integration of signals that act at gene promoters and gene-distal enhancers. Classically, promoters and enhancers are considered separate classes of regulatory elements, often distinguished by histone modifications. However, recent studies have revealed broad
Andersson, Robin +2 more
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Long-Range Control of Class Switch Recombination by Transcriptional Regulatory Elements
Frontiers in Immunology, 2021 Immunoglobulin class switch recombination (CSR) plays a crucial role in adaptive immune responses through a change of the effector functions of antibodies and is triggered by T-cell-dependent as well as T-cell-independent antigens.
Audrey Dauba, Ahmed Amine Khamlichi
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Mechanisms of robustness in gene regulatory networks involved in neural development
Frontiers in Molecular Neuroscience, 2023 The functions of living organisms are affected by different kinds of perturbation, both internal and external, which in many cases have functional effects and phenotypic impact.
Camila D. Arcuschin +4 more
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