Tissue-specific analysis of chromatin state identifies temporal signatures of enhancer activity during embryonic development. (Q51827112)

13 April 2018

title

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

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13 April 2018

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13 April 2018

Charles Girardot

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13 April 2018

Yad Ghavi-Helm

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13 April 2018

Bartek Wilczynski

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13 April 2018

Eileen E. M. Furlong

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13 April 2018

Robert P Zinzen

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E Hilary Gustafson

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13 April 2018

Alexis Perez-Gonzalez

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13 April 2018

Nicolas Delhomme

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13 April 2018

Andrew Riddell

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13 April 2018

language of work or name

English

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publication date

8 January 2012

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13 April 2018

published in

Nature Genetics

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13 April 2018

volume

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13 April 2018

issue

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13 April 2018

page(s)

148-156

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13 April 2018

Differential chromatin marking of introns and expressed exons by H3K36me3.

cites work

1 reference

High-resolution profiling of histone methylations in the human genome

21 January 2018

1 reference

Histone modification levels are predictive for gene expression

21 January 2018

1 reference

Genome-wide maps of chromatin state in pluripotent and lineage-committed cells

21 January 2018

1 reference

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

21 January 2018

1 reference

Histone H3K27ac separates active from poised enhancers and predicts developmental state

21 January 2018

1 reference

A unique chromatin signature uncovers early developmental enhancers in humans

21 January 2018

1 reference

Combinatorial patterns of histone acetylations and methylations in the human genome

21 January 2018

1 reference

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

21 January 2018

1 reference

Plasticity in patterns of histone modifications and chromosomal proteins in Drosophila heterochromatin

21 January 2018

1 reference

Charting histone modifications and the functional organization of mammalian genomes

21 January 2018

1 reference

Regulation of organogenesis by the Caenorhabditis elegans FoxA protein PHA-4.

21 January 2018

1 reference

Global and gene-specific analyses show distinct roles for Myod and Myog at a common set of promoters

21 January 2018

1 reference

Temporal ChIP-on-chip reveals Biniou as a universal regulator of the visceral muscle transcriptional network

21 January 2018

1 reference

Dynamic CRM occupancy reflects a temporal map of developmental progression

21 January 2018

1 reference

Epigenetic temporal control of mouse Hox genes in vivo.

21 January 2018

1 reference

A hierarchy of H3K4me3 and H3K27me3 acquisition in spatial gene regulation in Xenopus embryos.

21 January 2018

1 reference

Broad chromosomal domains of histone modification patterns in C. elegans

21 January 2018

1 reference

Identification of functional elements and regulatory circuits by Drosophila modENCODE

21 January 2018

1 reference

Zebrafish promoter microarrays identify actively transcribed embryonic genes.

21 January 2018

1 reference

Functional and Mechanistic Diversity of Distal Transcription Enhancers

21 January 2018

1 reference

ChIP-on-chip protocol for genome-wide analysis of transcription factor binding in Drosophila melanogaster embryos

21 January 2018

1 reference

Combinatorial binding leads to diverse regulatory responses: Lmd is a tissue-specific modulator of Mef2 activity

21 January 2018

1 reference

A systematic analysis of Tinman function reveals Eya and JAK-STAT signaling as essential regulators of muscle development

21 January 2018

1 reference

A core transcriptional network for early mesoderm development in Drosophila melanogaster

21 January 2018

1 reference

A Temporal Map of Transcription Factor Activity: Mef2 Directly Regulates Target Genes at All Stages of Muscle Development

21 January 2018

1 reference

Combinatorial binding predicts spatio-temporal cis-regulatory activity

21 January 2018

1 reference

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

21 January 2018

1 reference

Transcriptional control of muscle development by myocyte enhancer factor-2 (MEF2) proteins

21 January 2018

1 reference

Systematic determination of patterns of gene expression during Drosophila embryogenesis

21 January 2018

1 reference

RNA polymerase stalling at developmental control genes in the Drosophila melanogaster embryo

21 January 2018

1 reference

A cis-regulatory map of the Drosophila genome.

21 January 2018

1 reference

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

21 January 2018

1 reference

Widespread transcription at neuronal activity-regulated enhancers

21 January 2018

1 reference

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

21 January 2018

1 reference

Chromatin signatures in multipotent human hematopoietic stem cells indicate the fate of bivalent genes during differentiation

21 January 2018

1 reference

Prevalent positive epistasis in Escherichia coli and Saccharomyces cerevisiae metabolic networks

21 January 2018

1 reference

Locus co-occupancy, nucleosome positioning, and H3K4me1 regulate the functionality of FOXA2-, HNF4A-, and PDX1-bound loci in islets and liver

21 January 2018

1 reference

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

21 January 2018

1 reference

Predicting gene expression from sequence

21 January 2018

1 reference

Inferring cellular networks using probabilistic graphical models

21 January 2018

1 reference

A Bayesian Networks Approach for Predicting Protein-Protein Interactions from Genomic Data

21 January 2018

1 reference

Causal protein-signaling networks derived from multiparameter single-cell data

21 January 2018

1 reference

Module networks: identifying regulatory modules and their condition-specific regulators from gene expression data

21 January 2018

1 reference

A simple method for gene expression and chromatin profiling of individual cell types within a tissue

21 January 2018

1 reference

Developmental regulation and individual differences of neuronal H3K4me3 epigenomes in the prefrontal cortex

21 January 2018

1 reference

Single-tube linear DNA amplification (LinDA) for robust ChIP-seq.

21 January 2018

1 reference

Genome-wide chromatin maps derived from limited numbers of hematopoietic progenitors

21 January 2018

1 reference

One-step purification of recombinant proteins using a nanomolar-affinity streptavidin-binding peptide, the SBP-Tag

21 January 2018

1 reference

The dorsal morphogen gradient regulates the mesoderm determinant twist in early Drosophila embryos

21 January 2018

1 reference

Multiplex detection of RNA expression in Drosophila embryos

21 January 2018

1 reference

P[acman]: a BAC transgenic platform for targeted insertion of large DNA fragments in D. melanogaster.

21 January 2018

1 reference

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

21 January 2018

1 reference

Transcriptional control in the segmentation gene network of Drosophila

21 January 2018

1 reference

Genetic programs activated by proneural proteins in the developing Drosophila PNS.

21 January 2018

1 reference

Identification of regulatory regions driving the expression of the Drosophila spalt complex at different developmental stages.

21 January 2018

1 reference

Efficient release from promoter-proximal stall sites requires transcript cleavage factor TFIIS.

21 January 2018

1 reference

Bioconductor: open software development for computational biology and bioinformatics

21 January 2018

1 reference

ShortRead: a bioconductor package for input, quality assessment and exploration of high-throughput sequence data

21 January 2018

1 reference

FlyBase: enhancing Drosophila Gene Ontology annotations

21 January 2018

1 reference

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

21 January 2018

1 reference

Model-based analysis of ChIP-Seq (MACS)

21 January 2018

1 reference

Empirical methods for controlling false positives and estimating confidence in ChIP-Seq peaks

21 January 2018

1 reference

The UCSC genome browser database: update 2007.

21 January 2018

1 reference

Global analysis of patterns of gene expression during Drosophila embryogenesis

21 January 2018

1 reference

REDfly v3.0: toward a comprehensive database of transcriptional regulatory elements in Drosophila

21 January 2018

1 reference

TM4 microarray software suite

21 January 2018

1 reference

BNFinder: exact and efficient method for learning Bayesian networks

21 January 2018

1 reference

Permutation P-values should never be zero: calculating exact P-values when permutations are randomly drawn

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/22231485

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifying functional cis-acting regulatory modules of the yan gene in Drosophila melanogaster.

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/22231485

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Nucleosome dynamics define transcriptional enhancers

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/22231485

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1038/NG.1064

1 reference

13 April 2018

1 reference

13 April 2018