Gene regulation during development in the light of topologically associating domains (Q38630582)

4 September 2017

Gene regulation during development in the light of topologically associating domains (English)

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4 September 2017

3

François Spitz

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4 September 2017

Silvia Remeseiro

1

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PubMed ID

26558551

4 September 2017

Andreas Hörnblad

series ordinal

2

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4 September 2017

12 November 2015

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Wiley interdisciplinary reviews. Developmental biology

4 September 2017

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4 September 2017

5

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4 September 2017

2

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4 September 2017

169-185

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Functional and mechanistic diversity of distal transcription enhancers

4 September 2017

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Highly conserved non-coding elements on either side of SOX9 associated with Pierre Robin sequence

21 January 2018

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Long-range upstream and downstream enhancers control distinct subsets of the complex spatiotemporal Sox9 expression pattern

21 January 2018

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DNaseI hypersensitivity and ultraconservation reveal novel, interdependent long-range enhancers at the complex Pax6 cis-regulatory region

21 January 2018

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A regulatory archipelago controls Hox genes transcription in digits

21 January 2018

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An integrated holo-enhancer unit defines tissue and gene specificity of the Fgf8 regulatory landscape.

21 January 2018

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A cluster of three long-range enhancers directs regional Shh expression in the epithelial linings.

21 January 2018

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A high-resolution enhancer atlas of the developing telencephalon

21 January 2018

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Fine tuning of craniofacial morphology by distant-acting enhancers

21 January 2018

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Bmp2 transcription in osteoblast progenitors is regulated by a distant 3' enhancer located 156.3 kilobases from the promoter

21 January 2018

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A functional screen for sonic hedgehog regulatory elements across a 1 Mb interval identifies long-range ventral forebrain enhancers.

21 January 2018

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

21 January 2018

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

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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A decade of 3C technologies: insights into nuclear organization

21 January 2018

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Exploring the three-dimensional organization of genomes: interpreting chromatin interaction data

21 January 2018

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Functional implications of genome topology.

21 January 2018

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

21 January 2018

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Topological domains in mammalian genomes identified by analysis of chromatin interactions

21 January 2018

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Spatial partitioning of the regulatory landscape of the X-inactivation centre

21 January 2018

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Dynamic genome architecture in the nuclear space: regulation of gene expression in three dimensions

21 January 2018

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Recruitment to the nuclear periphery can alter expression of genes in human cells

21 January 2018

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DNA sequence-dependent compartmentalization and silencing of chromatin at the nuclear lamina

21 January 2018

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Transcriptional repression mediated by repositioning of genes to the nuclear lamina

21 January 2018

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Developmentally regulated subnuclear genome reorganization restricts neural progenitor competence in Drosophila.

21 January 2018

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Diverse gene reprogramming events occur in the same spatial clusters of distal regulatory elements

21 January 2018

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Elimination of a long-range cis-regulatory module causes complete loss of limb-specific Shh expression and truncation of the mouse limb.

21 January 2018

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Looping versus linking: toward a model for long-distance gene activation

21 January 2018

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Looping, linking, and chromatin activity: new insights into beta-globin locus regulation

21 January 2018

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On a chromosome far, far away: LCRs and gene expression

21 January 2018

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In search of the determinants of enhancer-promoter interaction specificity

21 January 2018

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CTCF and cohesin: linking gene regulatory elements with their targets

21 January 2018

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An integrated encyclopedia of DNA elements in the human genome

21 January 2018

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Capturing chromosome conformation

21 January 2018

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3C-based technologies to study the shape of the genome

21 January 2018

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Genome architecture: domain organization of interphase chromosomes

21 January 2018

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Analysis of hundreds of cis-regulatory landscapes at high resolution in a single, high-throughput experiment.

21 January 2018

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Mapping long-range promoter contacts in human cells with high-resolution capture Hi-C.

21 January 2018

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Chromosome Conformation Capture Carbon Copy (5C): a massively parallel solution for mapping interactions between genomic elements

21 January 2018

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

21 January 2018

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Genome architectures revealed by tethered chromosome conformation capture and population-based modeling

21 January 2018

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A 3D map of the human genome at kilobase resolution reveals principles of chromatin looping

21 January 2018

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An oestrogen-receptor-α-bound human chromatin interactome

21 January 2018

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

21 January 2018

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

21 January 2018

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The long-range interaction landscape of gene promoters

21 January 2018

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Long-range downstream enhancers are essential for Pax6 expression

21 January 2018

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Multiple modular promoter elements drive graded brinker expression in response to the Dpp morphogen gradient

21 January 2018

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Morphological evolution through multiple cis-regulatory mutations at a single gene.

21 January 2018

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

21 January 2018

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The architecture of gene expression: integrating dispersed cis-regulatory modules into coherent regulatory domains

21 January 2018

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

21 January 2018

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Preferential associations between co-regulated genes reveal a transcriptional interactome in erythroid cells

21 January 2018

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Variegated gene expression caused by cell-specific long-range DNA interactions

21 January 2018

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Enhancer interaction networks as a means for singular olfactory receptor expression

21 January 2018

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The hierarchy of the 3D genome

21 January 2018

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

21 January 2018

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Predicting three-dimensional genome structure from transcriptional activity.

21 January 2018

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Nuclear organization of the genome and the potential for gene regulation

21 January 2018

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Looping and interaction between hypersensitive sites in the active beta-globin locus

21 January 2018

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Long-range chromosomal interactions regulate the timing of the transition between poised and active gene expression

21 January 2018

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The beta-globin nuclear compartment in development and erythroid differentiation

21 January 2018

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Maintenance of long-range DNA interactions after inhibition of ongoing RNA polymerase II transcription

21 January 2018

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Proximity among distant regulatory elements at the beta-globin locus requires GATA-1 and FOG-1.

21 January 2018

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A discrete transition zone organizes the topological and regulatory autonomy of the adjacent tfap2c and bmp7 genes

21 January 2018

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Mediator and cohesin connect gene expression and chromatin architecture

21 January 2018

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Development of five digits is controlled by a bipartite long-range cis-regulator

21 January 2018

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The contribution of cohesin-SA1 to gene expression and chromatin architecture in two murine tissues

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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Architectural protein subclasses shape 3D organization of genomes during lineage commitment

21 January 2018

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Chromatin architecture reorganization during stem cell differentiation.

21 January 2018

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Gene density, transcription, and insulators contribute to the partition of the Drosophila genome into physical domains

21 January 2018

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Condensin-driven remodelling of X chromosome topology during dosage compensation.

21 January 2018

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Cohesin-dependent globules and heterochromatin shape 3D genome architecture in S. pombe

21 January 2018

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Characterization of chromosomal architecture in Arabidopsis by chromosome conformation capture

21 January 2018

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Hi-C analysis in Arabidopsis identifies the KNOT, a structure with similarities to the flamenco locus of Drosophila.

21 January 2018

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Higher-order chromatin structure: bridging physics and biology

21 January 2018

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

21 January 2018

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Distinct structural transitions of chromatin topological domains correlate with coordinated hormone-induced gene regulation

21 January 2018

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PcG proteins, DNA methylation, and gene repression by chromatin looping.

21 January 2018

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The dynamic architecture of Hox gene clusters.

21 January 2018

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Molecular maps of the reorganization of genome-nuclear lamina interactions during differentiation

21 January 2018

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Topologically associating domains are stable units of replication-timing regulation

21 January 2018

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Comparative Hi-C reveals that CTCF underlies evolution of chromosomal domain architecture

21 January 2018

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Segmental folding of chromosomes: a basis for structural and regulatory chromosomal neighborhoods?

21 January 2018

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Bystander gene activation by a locus control region

21 January 2018

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A global control region defines a chromosomal regulatory landscape containing the HoxD cluster

21 January 2018

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Ripples from neighbouring transcription.

21 January 2018

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Enhancer-promoter specificity mediated by DPE or TATA core promoter motifs

21 January 2018

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Promoter-proximal tethering elements regulate enhancer-promoter specificity in the Drosophila Antennapedia complex

21 January 2018

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Enhancer-core-promoter specificity separates developmental and housekeeping gene regulation.

21 January 2018

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Topology of mammalian developmental enhancers and their regulatory landscapes

21 January 2018

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Genomic views of distant-acting enhancers

21 January 2018

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Disruption of autoregulatory feedback by a mutation in a remote, ultraconserved PAX6 enhancer causes aniridia

21 January 2018

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Long-range regulation at the SOX9 locus in development and disease

21 January 2018

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Inversion-induced disruption of the Hoxd cluster leads to the partition of regulatory landscapes.

21 January 2018

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A switch between topological domains underlies HoxD genes collinearity in mouse limbs

21 January 2018

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Multiple enhancers regulate Hoxd genes and the Hotdog LncRNA during cecum budding

21 January 2018

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Convergent evolution of complex regulatory landscapes and pleiotropy at Hox loci.

21 January 2018

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

21 January 2018

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Functional and topological characteristics of mammalian regulatory domains.

21 January 2018

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Spatial genome organization: contrasting views from chromosome conformation capture and fluorescence in situ hybridization

21 January 2018

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Insulators, long-range interactions, and genome function

21 January 2018

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A transposon-based chromosomal engineering method to survey a large cis-regulatory landscape in mice.

21 January 2018

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Targeted disruption of Pax1 defines its null phenotype and proves haploinsufficiency

21 January 2018

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Disruptions of topological chromatin domains cause pathogenic rewiring of gene-enhancer interactions

21 January 2018

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One-step generation of mice carrying mutations in multiple genes by CRISPR/Cas-mediated genome engineering

21 January 2018

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Predictive polymer modeling reveals coupled fluctuations in chromosome conformation and transcription

21 January 2018

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CTCF establishes discrete functional chromatin domains at the Hox clusters during differentiation

21 January 2018

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CTCF: an architectural protein bridging genome topology and function

21 January 2018

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Cohesin: its roles and mechanisms

21 January 2018

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CTCF physically links cohesin to chromatin

21 January 2018

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Cohesin mediates transcriptional insulation by CCCTC-binding factor

21 January 2018

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Cohesins functionally associate with CTCF on mammalian chromosome arms

21 January 2018

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CCCTC-binding factor (CTCF) and cohesin influence the genomic architecture of the Igh locus and antisense transcription in pro-B cells

21 January 2018

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Role of CCCTC binding factor (CTCF) and cohesin in the generation of single-cell diversity of protocadherin-α gene expression

21 January 2018

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CTCF/cohesin-mediated DNA looping is required for protocadherin α promoter choice

21 January 2018

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Cohesin-mediated interactions organize chromosomal domain architecture

21 January 2018

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Cohesin-based chromatin interactions enable regulated gene expression within preexisting architectural compartments

21 January 2018

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Cohesin and CTCF differentially affect chromatin architecture and gene expression in human cells

21 January 2018

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Transcription forms and remodels supercoiling domains unfolding large-scale chromatin structures

21 January 2018

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Models that include supercoiling of topological domains reproduce several known features of interphase chromosomes

21 January 2018

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Complexity of chromatin folding is captured by the strings and binders switch model

21 January 2018

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Nonspecific bridging-induced attraction drives clustering of DNA-binding proteins and genome organization.

21 January 2018

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Control of cell identity genes occurs in insulated neighborhoods in mammalian chromosomes

21 January 2018

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Clustering of tissue-specific sub-TADs accompanies the regulation of HoxA genes in developing limbs

21 January 2018

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Impact of copy number variations (CNVs) on long-range gene regulation at the HoxD locus

21 January 2018

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3D trajectories adopted by coding and regulatory DNA elements: first-passage times for genomic interactions

21 January 2018

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Determining long-range chromatin interactions for selected genomic sites using 4C-seq technology: from fixation to computation.

21 January 2018

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Large-scale chromatin organization: the good, the surprising, and the still perplexing

21 January 2018

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Transcription factories: genome organization and gene regulation

21 January 2018

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Dynamic imaging of genomic loci in living human cells by an optimized CRISPR/Cas system

21 January 2018

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Single-molecule dynamics of enhanceosome assembly in embryonic stem cells

21 January 2018

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21 January 2018

Identifiers

DOI

10.1002/WDEV.218

1 reference

4 September 2017

1 reference

PubMed ID

26558551