Absence of a simple code: how transcription factors read the genome

M Slattery, T Zhou, L Yang, ACD Machado… - Trends in biochemical …, 2014 - cell.com
Transcription factors (TFs) influence cell fate by interpreting the regulatory DNA within a
genome. TFs recognize DNA in a specific manner; the mechanisms underlying this …

The plant heat stress transcription factor (Hsf) family: structure, function and evolution

KD Scharf, T Berberich, I Ebersberger… - Biochimica et Biophysica …, 2012 - Elsevier
Ten years after the first overview of a complete plant Hsf family was presented for
Arabidopsis thaliana by Nover et al.[1], we compiled data for 252 Hsfs from nine plant …

Mammalian heat shock response and mechanisms underlying its genome-wide transcriptional regulation

DB Mahat, HH Salamanca, FM Duarte, CG Danko… - Molecular cell, 2016 - cell.com
The heat shock response (HSR) is critical for survival of all organisms. However, its scope,
extent, and the molecular mechanism of regulation are poorly understood. Here we show …

Controlling gene expression in response to stress

E De Nadal, G Ammerer, F Posas - Nature Reviews Genetics, 2011 - nature.com
Acute stress puts cells at risk, and rapid adaptation is crucial for maximizing cell survival.
Cellular adaptation mechanisms include modification of certain aspects of cell physiology …

Molecular mechanisms driving transcriptional stress responses

A Vihervaara, FM Duarte, JT Lis - Nature Reviews Genetics, 2018 - nature.com
Proteotoxic stress, that is, stress caused by protein misfolding and aggregation, triggers the
rapid and global reprogramming of transcription at genes and enhancers. Genome-wide …

The pioneer factor OCT4 requires the chromatin remodeller BRG1 to support gene regulatory element function in mouse embryonic stem cells

HW King, RJ Klose - Elife, 2017 - elifesciences.org
Pioneer transcription factors recognise and bind their target sequences in inaccessible
chromatin to establish new transcriptional networks throughout development and cellular …

Sequence features and chromatin structure around the genomic regions bound by 119 human transcription factors

J Wang, J Zhuang, S Iyer, XY Lin, TW Whitfield… - Genome …, 2012 - genome.cshlp.org
Chromatin immunoprecipitation coupled with high-throughput sequencing (ChIP-seq) has
become the dominant technique for map** transcription factor (TF) binding regions …

[HTML][HTML] Cofactor binding evokes latent differences in DNA binding specificity between Hox proteins

M Slattery, T Riley, P Liu, N Abe, P Gomez-Alcala… - Cell, 2011 - cell.com
Members of transcription factor families typically have similar DNA binding specificities yet
execute unique functions in vivo. Transcription factors often bind DNA as multiprotein …

HSF1 at a glance

A Vihervaara, L Sistonen - Journal of cell science, 2014 - journals.biologists.com
ABSTRACT Heat shock factor 1 (HSF1) is an evolutionarily highly conserved transcription
factor that coordinates stress-induced transcription and directs versatile physiological …

Distinct properties of cell-type-specific and shared transcription factor binding sites

J Gertz, D Savic, KE Varley, EC Partridge, A Safi, P Jain… - Molecular cell, 2013 - cell.com
Most human transcription factors bind a small subset of potential genomic sites and often
use different subsets in different cell types. To identify mechanisms that govern cell-type …