Transcriptional Regulatory Elements in the Human Genome

The sequence of the human genome

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A haplotype map of the human genome

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Rett syndrome is caused by mutations in X-linked MECP2, encoding methyl-CpG-binding protein 2

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Finishing the euchromatic sequence of the human genome

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Core Transcriptional Regulatory Circuitry in Human Embryonic Stem Cells

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Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes

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Recurrent Fusion of TMPRSS2 and ETS Transcription Factor Genes in Prostate Cancer

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The immune dysregulation, polyendocrinopathy, enteropathy, X-linked syndrome (IPEX) is caused by mutations of FOXP3

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The Transcriptional Landscape of the Mammalian Genome

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CpG Islands in vertebrate genomes

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Mutations in the DJ-1 Gene Associated with Autosomal Recessive Early-Onset Parkinsonism

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Methylated DNA and MeCP2 recruit histone deacetylase to repress transcription

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Position-independent, high-level expression of the human β-globin gene in transgenic mice

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Helix-Loop-Helix Proteins: Regulators of Transcription in Eucaryotic Organisms

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JASPAR: an open-access database for eukaryotic transcription factor binding profiles

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Genome-Wide Location and Function of DNA Binding Proteins

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Methylation of a CTCF-dependent boundary controls imprinted expression of the Igf2 gene

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Expression of a β-globin gene is enhanced by remote SV40 DNA sequences

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Campomelic dysplasia and autosomal sex reversal caused by mutations in an SRY-related gene

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Autosomal sex reversal and campomelic dysplasia are caused by mutations in and around the SRY-related gene SOX9.

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DNA binding sites: representation and discovery

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Transcription factors: structural families and principles of DNA recognition.

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A lymphocyte-specific cellular enhancer is located downstream of the joining region in immunoglobulin heavy chain genes

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Distribution and intensity of constraint in mammalian genomic sequence

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Looping and Interaction between Hypersensitive Sites in the Active β-globin Locus

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Congenital Heart Disease Caused by Mutations in the Transcription Factor NKX2-5

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Assessing computational tools for the discovery of transcription factor binding sites

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Transcriptional Control Signals of a Eukaryotic Protein-Coding Gene

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NUCLEASE HYPERSENSITIVE SITES IN CHROMATIN

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The RNA Polymerase II Core Promoter

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A long-range Shh enhancer regulates expression in the developing limb and fin and is associated with preaxial polydactyly

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Transcriptional activation by recruitment

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The protein CTCF is required for the enhancer blocking activity of vertebrate insulators

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Unbiased mapping of transcription factor binding sites along human chromosomes 21 and 22 points to widespread regulation of noncoding RNAs

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MATCHTM: a tool for searching transcription factor binding sites in DNA sequences

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TRANSFAC: a database on transcription factors and their DNA binding sites

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The general transcription factors of RNA polymerase II.Preprint

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Virus induction of human IFNβ gene expression requires the assembly of an enhanceosome

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Highly Conserved Non-Coding Sequences Are Associated with Vertebrate Development

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TRANSCRIPTION OF EUKARYOTIC PROTEIN-CODING GENES

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Polyalanine expansion and frameshift mutations of the paired-like homeobox gene PHOX2B in congenital central hypoventilation syndrome

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Going the Distance: A Current View of Enhancer Action

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Orchestrated response: a symphony of transcription factors for gene controlPreprint

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Interchromosomal associations between alternatively expressed loci

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CpG islands as gene markers in the vertebrate nucleus

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The value of prior knowledge in discovering motifs with MEME.

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Mutations in a putative global transcriptional regulator cause X-linked mental retardation with α-thalassemia (ATR-X syndrome)

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Insulators: many functions, many mechanismsPreprint

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Scanning Human Gene Deserts for Long-Range Enhancers

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A Corepressor/Coactivator Exchange Complex Required for Transcriptional Activation by Nuclear Receptors and Other Regulated Transcription Factors

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Evidence for stabilizing selection in a eukaryotic enhancer element

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The human PAX6 gene is mutated in two patients with aniridia

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Transcriptional coactivator complexes.

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Structure and mechanism of the RNA polymerase II transcription machinery

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Phylogenetic Shadowing of Primate Sequences to Find Functional Regions of the Human Genome

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Familial dyserythropoietic anaemia and thrombocytopenia due to an inherited mutation in GATA1

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Allosteric effects of DNA on transcriptional regulators

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Evolution of Transcription Factor Binding Sites in Mammalian Gene Regulatory Regions: Conservation and Turnover

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Locus control regions

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Genomic deletion of a long-range bone enhancer misregulates sclerostin in Van Buchem disease

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Association Between X-Linked Mixed Deafness and Mutations in the POU Domain Gene POU3F4

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Non-coding RNAs: hope or hype?

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Recruitment of CBP/p300 by the IFNβ Enhanceosome Is Required for Synergistic Activation of Transcription

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Gene regulation by Sp1 and Sp3

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Computational identification of promoters and first exons in the human genome

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Inappropriate Gene Activation in FSHD

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Regulation of RNA Polymerase II Transcription by Sequence-Specific DNA Binding Factors

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One Nucleotide in a κB Site Can Determine Cofactor Specificity for NF-κB Dimers

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Use of Chromatin Immunoprecipitation To Clone Novel E2F Target Promoters

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Dynamic regulation of pol II transcription by the mammalian Mediator complex

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Position-effect protection and enhancer blocking by the chicken β-globin insulator are separable activities

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Abundant Raw Material for Cis-Regulatory Evolution in Humans

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Biological control through regulated transcriptional coactivators

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The xeroderma pigmentosum group D (XPD) gene: one gene, two functions, three diseasesPreprint

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Embryonic ε and γ globin genes of a prosimian primate (Galago crassicaudatus)

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A mechanism for synergistic activation of a mammalian gene by GAL4 derivatives

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Dodecamer repeat expansion in cystatin B gene in progressive myoclonus epilepsy

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Eukaryotic Promoter RecognitionPreprint

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The Role of Corepressors in Transcriptional Regulation by Nuclear Hormone Receptors

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Binding affinities and cooperative interactions with bHLH activators delimit threshold responses to the dorsal gradient morphogen

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Large-scale human promoter mapping using CpG islands

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Distribution of NF-κB-binding sites across human chromosome 22

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Remote control of gene transcription

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Transcriptional control and the role of silencers in transcriptional regulation in eukaryotes

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Computational Detection and Location of Transcription Start Sites in Mammalian Genomic DNAPreprint

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The insulation of genes from external enhancers and silencing chromatin

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The Eukaryotic Promoter Database EPD

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Combinatorial control of gene expression

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Functional analysis of human promoter polymorphisms

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Intergenic transcription through a Polycomb group response element counteracts silencingPreprint

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