Enhancer biology and enhanceropathies (Q38193691)

30 August 2017

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title

Enhancer biology and enhanceropathies (English)

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30 August 2017

2

Ali Shilatifard

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30 August 2017

Edwin Smith

1

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30 August 2017

publication date

1 March 2014

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Nature Structural & Molecular Biology

30 August 2017

published in

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30 August 2017

volume

21

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30 August 2017

issue

3

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30 August 2017

page(s)

210-219

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

30 August 2017

cites work

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The SV40 72 base repair repeat has a striking effect on gene expression both in SV40 and other chimeric recombinants

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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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A tissue-specific transcription enhancer element is located in the major intron of a rearranged immunoglobulin heavy chain gene

21 January 2018

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Transcriptional Enhancer Elements in the Mouse Immunoglobulin Heavy Chain Locus

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Translocation of the c-myc gene into the immunoglobulin heavy chain locus in human Burkitt lymphoma and murine plasmacytoma cells

21 January 2018

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How to make stripes: deciphering the transition from non-periodic to periodic patterns in Drosophila segmentation

21 January 2018

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Transcriptional Enhancers in Animal Development and Evolution

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Disperse versus compact elements for the regulation of runt stripes in Drosophila.

21 January 2018

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The Drosophila melanogaster suppressor of Hairy-wing protein binds to specific sequences of the gypsy retrotransposon

21 January 2018

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Chip, a widely expressed chromosomal protein required for segmentation and activity of a remote wing margin enhancer in Drosophila

21 January 2018

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Drosophila nipped-B protein supports sister chromatid cohesion and opposes the stromalin/Scc3 cohesion factor to facilitate long-range activation of the cut gene

21 January 2018

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Interactions of the LIM-domain-binding factor Ldb1 with LIM homeodomain proteins

21 January 2018

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Synchronization of neurogenesis and motor neuron specification by direct coupling of bHLH and homeodomain transcription factors.

21 January 2018

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Controlling long-range genomic interactions at a native locus by targeted tethering of a looping factor

21 January 2018

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Chip interacts with diverse homeodomain proteins and potentiates bicoid activity in vivo

21 January 2018

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The genome-wide dynamics of the binding of Ldb1 complexes during erythroid differentiation

21 January 2018

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Mediator and cohesin connect gene expression and chromatin architecture

21 January 2018

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Genome-wide control of RNA polymerase II activity by cohesin

21 January 2018

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Functional and mechanistic diversity of distal transcription enhancers

21 January 2018

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Distant activation of transcription: mechanisms of enhancer action

21 January 2018

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World distribution, population genetics, and health burden of the hemoglobinopathies

21 January 2018

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β-Globin gene inactivation by DNA translocation in γβ-thalassaemi

21 January 2018

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https://api.crossref.org/works/10.1038%2FNSMB.2784

Locus control regions: overcoming heterochromatin-induced gene inactivation in mammals

21 January 2018

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Locus control regions, chromatin activation and transcription

21 January 2018

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https://api.crossref.org/works/10.1038%2FNSMB.2784

The human growth hormone gene is regulated by a multicomponent locus control region

21 January 2018

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https://api.crossref.org/works/10.1038%2FNSMB.2784

Identification of functional elements and regulatory circuits by Drosophila modENCODE

21 January 2018

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https://api.crossref.org/works/10.1038%2FNSMB.2784

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

21 January 2018

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Selective inhibition of tumor oncogenes by disruption of super-enhancers

21 January 2018

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https://api.crossref.org/works/10.1038%2FNSMB.2784

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Transcription initiation platforms and GTF recruitment at tissue-specific enhancers and promoters.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Chromatin stretch enhancer states drive cell-specific gene regulation and harbor human disease risk variants

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Super-enhancers in the control of cell identity and disease

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Shadow enhancers: frequently asked questions about distributed cis-regulatory information and enhancer redundancy

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Mechanisms of transcriptional precision in animal development.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Shadow enhancers foster robustness of Drosophila gastrulation

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Shadow enhancers as a source of evolutionary novelty

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Phenotypic robustness conferred by apparently redundant transcriptional enhancers

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Restricting activation-induced cytidine deaminase tumorigenic activity in B lymphocytes

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Histone H3K27ac separates active from poised enhancers and predicts developmental state

21 January 2018

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https://api.crossref.org/works/10.1038%2FNSMB.2784

A unique chromatin signature uncovers early developmental enhancers in humans

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Enhancer-associated H3K4 monomethylation by Trithorax-related, the Drosophila homolog of mammalian Mll3/Mll4

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

The MLL3/MLL4 branches of the COMPASS family function as major histone H3K4 monomethylases at enhancers

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

The COMPASS family of histone H3K4 methylases: mechanisms of regulation in development and disease pathogenesis

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Drosophila Set1 is the major histone H3 lysine 4 trimethyltransferase with role in transcription.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

The COMPASS family of H3K4 methylases in Drosophila

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Histone H3 lysine 4 (H3K4) methylation in development and differentiation

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Molecular genetic analysis of the Drosophila trithorax-related gene which encodes a novel SET domain protein

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Global analysis of H3K4 methylation defines MLL family member targets and points to a role for MLL1-mediated H3K4 methylation in the regulation of transcriptional initiation by RNA polymerase II.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Altered Hox expression and segmental identity in Mll-mutant mice

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

CBP-mediated acetylation of histone H3 lysine 27 antagonizes Drosophila Polycomb silencing.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Distinct roles of GCN5/PCAF-mediated H3K9ac and CBP/p300-mediated H3K18/27ac in nuclear receptor transactivation

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Structure and chemistry of the p300/CBP and Rtt109 histone acetyltransferases: implications for histone acetyltransferase evolution and function

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Genetic heterogeneity in Rubinstein-Taybi syndrome: mutations in both the CBP and EP300 genes cause disease

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Differential role of p300 and CBP acetyltransferase during myogenesis: p300 acts upstream of MyoD and Myf5

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Comprehensive analysis of the chromatin landscape in Drosophila melanogaster

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Transcriptional regulation by Polycomb group proteins

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Polycomb silencing mechanisms and the management of genomic programmes

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

SET for life: biochemical activities and biological functions of SET domain-containing proteins

21 January 2018

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https://api.crossref.org/works/10.1038%2FNSMB.2784

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Histone demethylase UTX and chromatin remodeler BRM bind directly to CBP and modulate acetylation of histone H3 lysine 27.

21 January 2018

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The Language of Histone Crosstalk

21 January 2018

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https://api.crossref.org/works/10.1038%2FNSMB.2784

Context dependency of Set1/COMPASS-mediated histone H3 Lys4 trimethylation

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Noncoding transcription at enhancers: general principles and functional models

21 January 2018

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Long noncoding RNAs usher in a new era in the biology of enhancers

21 January 2018

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Widespread transcription at neuronal activity-regulated enhancers

21 January 2018

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

21 January 2018

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Intergenic transcription and transinduction of the human beta-globin locus

21 January 2018

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Functional roles of enhancer RNAs for oestrogen-dependent transcriptional activation

21 January 2018

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Long noncoding RNAs with enhancer-like function in human cells

21 January 2018

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Activating RNAs associate with Mediator to enhance chromatin architecture and transcription

21 January 2018

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A long noncoding RNA maintains active chromatin to coordinate homeotic gene expression

21 January 2018

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Genome regulation by long noncoding RNAs.

21 January 2018

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Pioneer transcription factors: establishing competence for gene expression

21 January 2018

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Epigenetic priming of a pre-B cell-specific enhancer through binding of Sox2 and Foxd3 at the ESC stage.

21 January 2018

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Transcriptional competence and the active marking of tissue-specific enhancers by defined transcription factors in embryonic and induced pluripotent stem cells

21 January 2018

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The RNA Pol II elongation factor Ell3 marks enhancers in ES cells and primes future gene activation

21 January 2018

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Cell type specificity of chromatin organization mediated by CTCF and cohesin.

21 January 2018

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Latent enhancers activated by stimulation in differentiated cells

21 January 2018

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Remodeling of the enhancer landscape during macrophage activation is coupled to enhancer transcription.

21 January 2018

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Cohesin and human disease

21 January 2018

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On the molecular etiology of Cornelia de Lange syndrome

21 January 2018

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Father-to-daughter transmission of Cornelia de Lange syndrome caused by a mutation in the 5' untranslated region of the NIPBL Gene

21 January 2018

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Exome sequencing identifies MLL2 mutations as a cause of Kabuki syndrome

21 January 2018

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Deletion of KDM6A, a histone demethylase interacting with MLL2, in three patients with Kabuki syndrome

21 January 2018

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The H3K27me3 demethylase dUTX is a suppressor of Notch- and Rb-dependent tumors in Drosophila

21 January 2018

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The Drosophila ortholog of MLL3 and MLL4, trithorax related, functions as a negative regulator of tissue growth

21 January 2018

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Drosophila SETs its sights on cancer: Trr/MLL3/4 COMPASS-like complexes in development and disease

21 January 2018

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The mutational landscape of lethal castration-resistant prostate cancer

21 January 2018

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Dissecting the genomic complexity underlying medulloblastoma

21 January 2018

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Frequent mutation of histone-modifying genes in non-Hodgkin lymphoma

21 January 2018

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The genetic landscape of the childhood cancer medulloblastoma

21 January 2018

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Analysis of the coding genome of diffuse large B-cell lymphoma

21 January 2018

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Medulloblastoma exome sequencing uncovers subtype-specific somatic mutations

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Epigenomic enhancer profiling defines a signature of colon cancer

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

CBP/p300-mediated acetylation of histone H3 on lysine 56

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Transcriptional/epigenetic regulator CBP/p300 in tumorigenesis: structural and functional versatility in target recognition.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

GATA Transcription Factors and Cancer

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Mutations in GATA2 are associated with the autosomal dominant and sporadic monocytopenia and mycobacterial infection (MonoMAC) syndrome.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

GATA2 haploinsufficiency caused by mutations in a conserved intronic element leads to MonoMAC syndrome

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Point mutations in a distant sonic hedgehog cis-regulator generate a variable regulatory output responsible for preaxial polydactyly

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Combinatorial effects of multiple enhancer variants in linkage disequilibrium dictate levels of gene expression to confer susceptibility to common traits

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Chromatin marks identify critical cell types for fine mapping complex trait variants

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

An integrated encyclopedia of DNA elements in the human genome

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

An erythroid enhancer of BCL11A subject to genetic variation determines fetal hemoglobin level.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Correction of sickle cell disease in adult mice by interference with fetal hemoglobin silencing

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

TETonic shift: biological roles of TET proteins in DNA demethylation and transcription

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

ZFN, TALEN, and CRISPR/Cas-based methods for genome engineering

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Locus-specific editing of histone modifications at endogenous enhancers

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Long- and short-range transcriptional repressors induce distinct chromatin states on repressed genes

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Essential functions of the histone demethylase lid

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Utx is required for proper induction of ectoderm and mesoderm during differentiation of embryonic stem cells

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

UTX and UTY demonstrate histone demethylase-independent function in mouse embryonic development

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Histone and DNA methylation defects at Hox genes in mice expressing a SET domain-truncated form of Mll.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

UTX regulates mesoderm differentiation of embryonic stem cells independent of H3K27 demethylase activity

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Rev-Erbs repress macrophage gene expression by inhibiting enhancer-directed transcription.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Two distinct E3 ubiquitin ligases have complementary functions in the regulation of delta and serrate signaling in Drosophila

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Combinatorial regulation of tissue specification by GATA and FOG factors.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Binding of the winged-helix transcription factor HNF3 to a linker histone site on the nucleosome.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

The forkhead factor FoxE1 binds to the thyroperoxidase promoter during thyroid cell differentiation and modifies compacted chromatin structure

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Chromatin opening and stable perturbation of core histone:DNA contacts by FoxO1.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Transcription control of early B cell differentiation

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

The genomic landscapes of inflammation.

21 January 2018

1 reference

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Zelda binding in the early Drosophila melanogaster embryo marks regions subsequently activated at the maternal-to-zygotic transition

21 January 2018

1 reference

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

Temporal coordination of gene networks by Zelda in the early Drosophila embryo.

21 January 2018

1 reference

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Cohesin at active genes: a unifying theme for cohesin and gene expression from model organisms to humans

21 January 2018

1 reference

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LIM-domain-binding protein 1: a multifunctional cofactor that interacts with diverse proteins.

21 January 2018

1 reference

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Chromatin domains, insulators, and the regulation of gene expression

21 January 2018

1 reference

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Making connections: insulators organize eukaryotic chromosomes into independent cis-regulatory networks

21 January 2018

1 reference

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Chromatin insulators: linking genome organization to cellular function

21 January 2018

1 reference

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KMT2D maintains neoplastic cell proliferation and global histone H3 lysine 4 monomethylation

21 January 2018

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

21 January 2018

1 reference

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SAGA and ATAC histone acetyl transferase complexes regulate distinct sets of genes and ATAC defines a class of p300-independent enhancers

21 January 2018

1 reference

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Histone crosstalk between H3S10ph and H4K16ac generates a histone code that mediates transcription elongation

21 January 2018

1 reference

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

21 January 2018

1 reference

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BET domain co-regulators in obesity, inflammation and cancer

21 January 2018

1 reference

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γ-β-Thalassaemia studies showing that deletion of the γ- and δ-genes influences β-globin gene expression in man

21 January 2018

1 reference

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Enhancer decommissioning by LSD1 during embryonic stem cell differentiation

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNSMB.2784

MLL2 and KDM6A mutations in patients with Kabuki syndrome

31 March 2020

1 reference

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

31 March 2020

1 reference

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Nipped-B, a Drosophila homologue of chromosomal adherins, participates in activation by remote enhancers in the cut and Ultrabithorax genes.

31 March 2020

1 reference

https://pubmed.ncbi.nlm.nih.gov/24599251

12 December 2020

Tissue specific and position independent expression of the complete gene domain for chicken lysozyme in transgenic mice

1 reference

https://pubmed.ncbi.nlm.nih.gov/24599251

12 December 2020

Expression of the cut locus in the Drosophila wing margin is required for cell type specification and is regulated by a distant enhancer

1 reference

https://pubmed.ncbi.nlm.nih.gov/24599251

12 December 2020

Genes regulating the remote wing margin enhancer in the Drosophila cut locus

1 reference

https://pubmed.ncbi.nlm.nih.gov/24599251

12 December 2020

Identifiers

DOI

10.1038/NSMB.2784

1 reference

30 August 2017

1 reference