Functions of bromodomain-containing proteins and their roles in homeostasis and cancer

T Fujisawa, P Filippakopoulos - Nature reviews Molecular cell biology, 2017 - nature.com
Bromodomains (BRDs) are evolutionarily conserved protein–protein interaction modules
that are found in a wide range of proteins with diverse catalytic and scaffolding functions and …

ChIP–seq and beyond: new and improved methodologies to detect and characterize protein–DNA interactions

TS Furey - Nature Reviews Genetics, 2012 - nature.com
Chromatin immunoprecipitation experiments followed by sequencing (ChIP–seq) detect
protein–DNA binding events and chemical modifications of histone proteins. Challenges in …

Acetylation of histone H2B marks active enhancers and predicts CBP/p300 target genes

T Narita, Y Higashijima, S Kilic, T Liebner, J Walter… - Nature Genetics, 2023 - nature.com
Chromatin features are widely used for genome-scale map** of enhancers. However,
discriminating active enhancers from other cis-regulatory elements, predicting enhancer …

Time-resolved analysis reveals rapid dynamics and broad scope of the CBP/p300 acetylome

BT Weinert, T Narita, S Satpathy, B Srinivasan… - Cell, 2018 - cell.com
The acetyltransferases CBP and p300 are multifunctional transcriptional co-activators. Here,
we combined quantitative proteomics with CBP/p300-specific catalytic inhibitors …

Blame it on the antibodies

M Baker - Nature, 2015 - nature.com
A few scientists who have been burned by bad experiences with antibodies have begun to
speak up. Rimm's disappointment set him on a crusade to educate others by writing reviews …

ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia

SG Landt, GK Marinov, A Kundaje… - Genome …, 2012 - genome.cshlp.org
Chromatin immunoprecipitation (ChIP) followed by high-throughput DNA sequencing (ChIP-
seq) has become a valuable and widely used approach for map** the genomic location of …

Histone modifications for human epigenome analysis

H Kimura - Journal of human genetics, 2013 - nature.com
Histones function both positively and negatively in the regulation of gene expression, mainly
governed by post-translational modifications on specific amino acid residues. Although …

Chemical and biochemical perspectives of protein lysine methylation

M Luo - Chemical reviews, 2018 - ACS Publications
Protein lysine methylation is a distinct posttranslational modification that causes minimal
changes in the size and electrostatic status of lysine residues. Lysine methylation plays …

DNA methylation changes in plasticity genes accompany the formation and maintenance of memory

R Halder, M Hennion, RO Vidal, O Shomroni… - Nature …, 2016 - nature.com
The ability to form memories is a prerequisite for an organism's behavioral adaptation to
environmental changes. At the molecular level, the acquisition and maintenance of memory …

A global view of the human post-translational modification landscape

N Kitamura, JJ Galligan - Biochemical Journal, 2023 - portlandpress.com
Post-translational modifications (PTMs) provide a rapid response to stimuli, finely tuning
metabolism and gene expression and maintain homeostasis. Advances in mass …