(Q38194866)

30 August 2017

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title

Transcriptional enhancers: from properties to genome-wide predictions (English)

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30 August 2017

3

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30 August 2017

Gerald Stampfel

2

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author name string

Daria Shlyueva

series ordinal

1

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30 August 2017

publication date

11 March 2014

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30 August 2017

published in

Nature Reviews Genetics

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30 August 2017

volume

15

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30 August 2017

issue

4

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30 August 2017

page(s)

272-286

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

30 August 2017

cites work

1 reference

Chromosomal dynamics at the Shh locus: limb bud-specific differential regulation of competence and active transcription.

21 January 2018

1 reference

Cancer epigenetics: from mechanism to therapy

21 January 2018

1 reference

Evo-Devo and an Expanding Evolutionary Synthesis: A Genetic Theory of Morphological Evolution

21 January 2018

1 reference

Genomic views of distant-acting enhancers

21 January 2018

1 reference

Deciphering the transcriptional cis-regulatory code

21 January 2018

1 reference

Systematic determination of patterns of gene expression during Drosophila embryogenesis

21 January 2018

1 reference

EMAGE mouse embryo spatial gene expression database: 2010 update

21 January 2018

1 reference

Integrating common and rare genetic variation in diverse human populations

21 January 2018

1 reference

An integrated encyclopedia of DNA elements in the human genome

21 January 2018

1 reference

Identification of functional elements and regulatory circuits by Drosophila modENCODE

21 January 2018

1 reference

The binding site on SV40 DNA for a T antigen-related protein

21 January 2018

1 reference

Specific DNA binding of GAL4, a positive regulatory protein of yeast

21 January 2018

1 reference

Exploiting transcription factor binding site clustering to identify cis-regulatory modules involved in pattern formation in the Drosophila genome

21 January 2018

1 reference

Reliable prediction of regulator targets using 12 Drosophila genomes

21 January 2018

1 reference

In vivo validation of a computationally predicted conserved Ath5 target gene set

21 January 2018

1 reference

Genome-wide prediction of mammalian enhancers based on analysis of transcription-factor binding affinity

21 January 2018

1 reference

A probabilistic method to detect regulatory modules

21 January 2018

1 reference

i-cisTarget: an integrative genomics method for the prediction of regulatory features and cis-regulatory modules

21 January 2018

1 reference

Computational strategies for the genome-wide identification of cis-regulatory elements and transcriptional targets

21 January 2018

1 reference

Genomic approaches towards finding cis-regulatory modules in animals

21 January 2018

1 reference

Genome-wide analysis of ETS-family DNA-binding in vitro and in vivo

21 January 2018

1 reference

DNA-binding specificities of human transcription factors

21 January 2018

1 reference

Analysis of homeodomain specificities allows the family-wide prediction of preferred recognition sites

21 January 2018

1 reference

Uncovering cis-regulatory sequence requirements for context-specific transcription factor binding

21 January 2018

1 reference

Cofactor binding evokes latent differences in DNA binding specificity between Hox proteins

21 January 2018

1 reference

ChIP-Seq identification of weakly conserved heart enhancers

21 January 2018

1 reference

Comparative genomics of gene regulation-conservation and divergence of cis-regulatory information.

21 January 2018

1 reference

Motif-blind, genome-wide discovery of cis-regulatory modules in Drosophila and mouse

21 January 2018

1 reference

Genome-wide discovery of human heart enhancers

21 January 2018

1 reference

Systematic elucidation and in vivo validation of sequences enriched in hindbrain transcriptional control.

21 January 2018

1 reference

Genome-wide mapping of in vivo protein-DNA interactions

21 January 2018

1 reference

Genome-wide profiles of STAT1 DNA association using chromatin immunoprecipitation and massively parallel sequencing

21 January 2018

1 reference

Comprehensive genome-wide protein-DNA interactions detected at single-nucleotide resolution

21 January 2018

1 reference

Identification of in vivo DNA targets of chromatin proteins using tethered dam methyltransferase

21 January 2018

1 reference

Transcription factors: from enhancer binding to developmental control

21 January 2018

1 reference

A core transcriptional network for early mesoderm development in Drosophila melanogaster

21 January 2018

1 reference

Whole-genome ChIP-chip analysis of Dorsal, Twist, and Snail suggests integration of diverse patterning processes in the Drosophila embryo

21 January 2018

1 reference

Transcription factors bind thousands of active and inactive regions in the Drosophila blastoderm

21 January 2018

1 reference

HOT regions function as patterned developmental enhancers and have a distinct cis-regulatory signature

21 January 2018

1 reference

DNA regions bound at low occupancy by transcription factors do not drive patterned reporter gene expression in Drosophila

21 January 2018

1 reference

The lac repressor displays facilitated diffusion in living cells.

21 January 2018

1 reference

Highly expressed loci are vulnerable to misleading ChIP localization of multiple unrelated proteins

21 January 2018

1 reference

Measuring chromatin interaction dynamics on the second time scale at single-copy genes

21 January 2018

1 reference

Genome-wide protein-DNA binding dynamics suggest a molecular clutch for transcription factor function

21 January 2018

1 reference

Hotspots of transcription factor colocalization in the genome of Drosophila melanogaster

21 January 2018

1 reference

ChIP-seq accurately predicts tissue-specific activity of enhancers

21 January 2018

1 reference

Distinct and predictive chromatin signatures of transcriptional promoters and enhancers in the human genome

21 January 2018

1 reference

A unique chromatin signature uncovers early developmental enhancers in humans

21 January 2018

1 reference

A high-resolution enhancer atlas of the developing telencephalon

21 January 2018

1 reference

Large-scale discovery of enhancers from human heart tissue

21 January 2018

1 reference

Systematic protein location mapping reveals five principal chromatin types in Drosophila cells

21 January 2018

1 reference

A network model of the molecular organization of chromatin in Drosophila

21 January 2018

1 reference

Combinatorial patterning of chromatin regulators uncovered by genome-wide location analysis in human cells

21 January 2018

1 reference

Chromosomal subunits in active genes have an altered conformation

21 January 2018

1 reference

Synthesis of globin ribonucleic acid from duck-reticulocyte chromatin in vitro

21 January 2018

1 reference

High-resolution mapping and characterization of open chromatin across the genome

21 January 2018

1 reference

Genome-scale identification of nucleosome positions in S. cerevisiae

21 January 2018

1 reference

An expansive human regulatory lexicon encoded in transcription factor footprints

21 January 2018

1 reference

FAIRE (Formaldehyde-Assisted Isolation of Regulatory Elements) isolates active regulatory elements from human chromatin

21 January 2018

1 reference

Determinants and dynamics of genome accessibility

21 January 2018

1 reference

Pioneer transcription factors: establishing competence for gene expression

21 January 2018

1 reference

Nucleosome-mediated cooperativity between transcription factors

21 January 2018

1 reference

Collaborative competition mechanism for gene activation in vivo

21 January 2018

1 reference

Accurate inference of transcription factor binding from DNA sequence and chromatin accessibility data

21 January 2018

1 reference

Quantitative models of the mechanisms that control genome-wide patterns of transcription factor binding during early Drosophila development

21 January 2018

1 reference

Histone modifications at human enhancers reflect global cell-type-specific gene expression

21 January 2018

1 reference

Genome-wide quantitative enhancer activity maps identified by STARR-seq

21 January 2018

1 reference

Identification and characterization of cell type-specific and ubiquitous chromatin regulatory structures in the human genome

21 January 2018

1 reference

Transcriptional repression in development

21 January 2018

1 reference

Embryonic priming of a miRNA locus predetermines postmitotic neuronal left/right asymmetry in C. elegans

21 January 2018

1 reference

Chromatin modifications and their function

21 January 2018

1 reference

Active chromatin domains are defined by acetylation islands revealed by genome-wide mapping

21 January 2018

1 reference

Tissue-specific analysis of chromatin state identifies temporal signatures of enhancer activity during embryonic development.

21 January 2018

1 reference

Histone H3 lysine 9 methylation is an epigenetic imprint of facultative heterochromatin.

21 January 2018

1 reference

Dynamic and coordinated epigenetic regulation of developmental transitions in the cardiac lineage

21 January 2018

1 reference

A map of the cis-regulatory sequences in the mouse genome

21 January 2018

1 reference

Comprehensive analysis of the chromatin landscape in Drosophila melanogaster

21 January 2018

1 reference

Mapping and analysis of chromatin state dynamics in nine human cell types

21 January 2018

1 reference

A bivalent chromatin structure marks key developmental genes in embryonic stem cells

21 January 2018

1 reference

Latent enhancers activated by stimulation in differentiated cells

21 January 2018

1 reference

High-resolution profiling of histone methylations in the human genome

21 January 2018

1 reference

A rapid, extensive, and transient transcriptional response to estrogen signaling in breast cancer cells

21 January 2018

1 reference

Defining the status of RNA polymerase at promoters

21 January 2018

1 reference

Widespread transcription at neuronal activity-regulated enhancers

21 January 2018

1 reference

A large fraction of extragenic RNA pol II transcription sites overlap enhancers

21 January 2018

1 reference

Activating RNAs associate with Mediator to enhance chromatin architecture and transcription

21 January 2018

1 reference

Noncoding transcription at enhancers: general principles and functional models

21 January 2018

1 reference

Ripples from neighbouring transcription.

21 January 2018

1 reference

Evolution and functions of long noncoding RNAs

21 January 2018

1 reference

ChromHMM: automating chromatin-state discovery and characterization

21 January 2018

1 reference

Transcription in the absence of histone H3.2 and H3K4 methylation.

21 January 2018

1 reference

A histone mutant reproduces the phenotype caused by loss of histone-modifying factor Polycomb.

21 January 2018

1 reference

Dynamics and memory of heterochromatin in living cells.

21 January 2018

1 reference

Modification of enhancer chromatin: what, how, and why?

21 January 2018

1 reference

Mediator and cohesin connect gene expression and chromatin architecture

21 January 2018

1 reference

A CTCF-independent role for cohesin in tissue-specific transcription

21 January 2018

1 reference

Master transcription factors and mediator establish super-enhancers at key cell identity genes

21 January 2018

1 reference

Genomics tools for unraveling chromosome architecture

21 January 2018

1 reference

An oestrogen-receptor-α-bound human chromatin interactome

21 January 2018

1 reference

Extensive promoter-centered chromatin interactions provide a topological basis for transcription regulation

21 January 2018

1 reference

Comprehensive mapping of long-range interactions reveals folding principles of the human genome

21 January 2018

1 reference

Three-dimensional folding and functional organization principles of the Drosophila genome

21 January 2018

1 reference

The hierarchy of the 3D genome

21 January 2018

1 reference

Topology of mammalian developmental enhancers and their regulatory landscapes

21 January 2018

1 reference

The long-range interaction landscape of gene promoters

21 January 2018

1 reference

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

21 January 2018

1 reference

Mice lacking a Myc enhancer that includes human SNP rs6983267 are resistant to intestinal tumors.

21 January 2018

1 reference

Highly recurrent TERT promoter mutations in human melanoma

21 January 2018

1 reference

Developmental gene regulation in the era of genomics

21 January 2018

1 reference

TALE-mediated modulation of transcriptional enhancers in vivo

21 January 2018

1 reference

Chromatin connectivity maps reveal dynamic promoter-enhancer long-range associations

21 January 2018

1 reference

Interactome maps of mouse gene regulatory domains reveal basic principles of transcriptional regulation.

21 January 2018

1 reference

Combinatorial binding predicts spatio-temporal cis-regulatory activity

21 January 2018

1 reference

A resource for manipulating gene expression and analyzing cis-regulatory modules in the Drosophila CNS.

21 January 2018

1 reference

A first version of the Caenorhabditis elegans Promoterome

21 January 2018

1 reference

VISTA Enhancer Browser--a database of tissue-specific human enhancers

21 January 2018

1 reference

Highly parallel assays of tissue-specific enhancers in whole Drosophila embryos

21 January 2018

1 reference

Barcoded DNA-tag reporters for multiplex cis-regulatory analysis

21 January 2018

1 reference

Systematic dissection and optimization of inducible enhancers in human cells using a massively parallel reporter assay

21 January 2018

1 reference

Massively parallel functional dissection of mammalian enhancers in vivo

21 January 2018

1 reference

Complex effects of nucleotide variants in a mammalian cis-regulatory element.

21 January 2018

1 reference

Inferring gene regulatory logic from high-throughput measurements of thousands of systematically designed promoters

21 January 2018

1 reference

Massively parallel decoding of mammalian regulatory sequences supports a flexible organizational model

21 January 2018

1 reference

Analysis of combinatorial cis-regulation in synthetic and genomic promoters

21 January 2018

1 reference

Cell-type-specific nuclei purification from whole animals for genome-wide expression and chromatin profiling.

21 January 2018

1 reference

Whole-genome chromatin profiling from limited numbers of cells using nano-ChIP-seq

21 January 2018

1 reference

Single-cell Hi-C reveals cell-to-cell variability in chromosome structure

21 January 2018

1 reference

Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position

21 January 2018

1 reference

Single-cell RNA-seq reveals dynamic, random monoallelic gene expression in mammalian cells

21 January 2018

1 reference

CRISPR-mediated modular RNA-guided regulation of transcription in eukaryotes

21 January 2018

1 reference

Locus-specific editing of histone modifications at endogenous enhancers

21 January 2018

1 reference

Optical control of mammalian endogenous transcription and epigenetic states

21 January 2018

1 reference

FLASH assembly of TALENs for high-throughput genome editing

21 January 2018

1 reference

A Programmable Dual-RNA-Guided DNA Endonuclease in Adaptive Bacterial Immunity

21 January 2018

1 reference

RNA-guided human genome engineering via Cas9

21 January 2018

1 reference

Large-scale analysis of the regulatory architecture of the mouse genome with a transposon-associated sensor

21 January 2018

1 reference

Chromatin position effects assayed by thousands of reporters integrated in parallel

21 January 2018

1 reference

Systematic localization of common disease-associated variation in regulatory DNA

21 January 2018

1 reference

Selective inhibition of tumor oncogenes by disruption of super-enhancers

21 January 2018

1 reference

Role of SWI/SNF in acute leukemia maintenance and enhancer-mediated Myc regulation

21 January 2018

1 reference

RNAi screen identifies Brd4 as a therapeutic target in acute myeloid leukaemia

21 January 2018

1 reference

BET bromodomain inhibition as a therapeutic strategy to target c-Myc

21 January 2018

1 reference

Small-molecule inhibition of BRD4 as a new potent approach to eliminate leukemic stem- and progenitor cells in acute myeloid leukemia AML.

21 January 2018

1 reference

Finding DNA regulatory motifs within unaligned noncoding sequences clustered by whole-genome mRNA quantitation

21 January 2018

1 reference

Sequencing and comparison of yeast species to identify genes and regulatory elements

21 January 2018

1 reference

The TAGteam DNA motif controls the timing of Drosophila pre-blastoderm transcription

21 January 2018

1 reference

The zinc-finger protein Zelda is a key activator of the early zygotic genome in Drosophila

21 January 2018

1 reference

Quantifying DNA-protein interactions by double-stranded DNA arrays.

21 January 2018

1 reference

Systematic evolution of ligands by exponential enrichment: RNA ligands to bacteriophage T4 DNA polymerase

21 January 2018

1 reference

Isolation of ORC6, a component of the yeast origin recognition complex by a one-hybrid system

21 January 2018

1 reference

A bacterial one-hybrid system for determining the DNA-binding specificity of transcription factors

21 January 2018

1 reference

TRANSFAC and its module TRANSCompel: transcriptional gene regulation in eukaryotes

21 January 2018

1 reference

JASPAR 2010: the greatly expanded open-access database of transcription factor binding profiles

21 January 2018

1 reference

UniPROBE: an online database of protein binding microarray data on protein-DNA interactions

21 January 2018

1 reference

Massively parallel synthetic promoter assays reveal the in vivo effects of binding site variants

21 January 2018

1 reference

A green fluorescent protein enhancer trap screen in Drosophila photoreceptor cells

21 January 2018

1 reference

Systematic identification of mammalian regulatory motifs' target genes and functions

21 January 2018

1 reference

Mechanisms of polycomb gene silencing: knowns and unknowns

31 March 2020

1 reference

A high-resolution map of the three-dimensional chromatin interactome in human cells

31 March 2020

1 reference

A selective inhibitor of EZH2 blocks H3K27 methylation and kills mutant lymphoma cells

31 March 2020

1 reference

Determining the specificity of protein–DNA interactions

31 March 2020

1 reference

The hardwiring of development: organization and function of genomic regulatory systems.

31 March 2020

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/24614317

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

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

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/24614317

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1038/NRG3682

1 reference

Dimensions Publication ID

30 August 2017

1000164192

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