The selection and function of cell type-specific enhancers

S Heinz, CE Romanoski, C Benner… - Nature reviews Molecular …, 2015 - nature.com
The human body contains several hundred cell types, all of which share the same genome.
In metazoans, much of the regulatory code that drives cell type-specific gene expression is …

Pioneer transcription factors: establishing competence for gene expression

KS Zaret, JS Carroll - Genes & development, 2011 - genesdev.cshlp.org
Transcription factors are adaptor molecules that detect regulatory sequences in the DNA
and target the assembly of protein complexes that control gene expression. Yet much of the …

The pioneer transcription factor FoxA maintains an accessible nucleosome configuration at enhancers for tissue-specific gene activation

M Iwafuchi-Doi, G Donahue, A Kakumanu, JA Watts… - Molecular cell, 2016 - cell.com
Nuclear DNA wraps around core histones to form nucleosomes, which restricts the binding
of transcription factors to gene regulatory sequences. Pioneer transcription factors can bind …

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

S Bonn, RP Zinzen, C Girardot, EH Gustafson… - Nature …, 2012 - nature.com
Chromatin modifications are associated with many aspects of gene expression, yet their role
in cellular transitions during development remains elusive. Here, we use a new approach to …

Pancreatic β cell enhancers regulate rhythmic transcription of genes controlling insulin secretion

M Perelis, B Marcheva, K Moynihan Ramsey… - Science, 2015 - science.org
INTRODUCTION The circadian clock is a molecular oscillator that coordinates behavior and
physiology in anticipation of the daily light cycle. Desynchrony of circadian cycles, through …

The transcriptional landscape of mouse beta cells compared to human beta cells reveals notable species differences in long non-coding RNA and protein-coding …

C Benner, T van der Meulen, E Cacéres, K Tigyi… - BMC genomics, 2014 - Springer
Background Insulin producing beta cell and glucagon producing alpha cells are colocalized
in pancreatic islets in an arrangement that facilitates the coordinated release of the two …

H3K4 tri‐methylation provides an epigenetic signature of active enhancers

A Pekowska, T Benoukraf, J Zacarias‐Cabeza… - The EMBO …, 2011 - embopress.org
Combinations of post‐translational histone modifications shape the chromatin landscape
during cell development in eukaryotes. However, little is known about the modifications …

[HTML][HTML] A role for H3K4 monomethylation in gene repression and partitioning of chromatin readers

J Cheng, R Blum, C Bowman, D Hu, A Shilatifard… - Molecular cell, 2014 - cell.com
Monomethylation of lysine 4 on histone H3 (H3K4me1) is a well-established feature of
enhancers and promoters, although its function is unknown. Here, we uncover roles for …

[HTML][HTML] Animal transcription networks as highly connected, quantitative continua

MD Biggin - Developmental cell, 2011 - cell.com
To understand how transcription factors function, it is essential to determine the range of
genes that they each bind and regulate in vivo. Here I review evidence that most animal …

Genome-wide mapping of transcriptional enhancer candidates using DNA and chromatin features in maize

R Oka, J Zicola, B Weber, SN Anderson, C Hodgman… - Genome biology, 2017 - Springer
Background While most cells in multicellular organisms carry the same genetic information,
in each cell type only a subset of genes is being transcribed. Such differentiation in gene …