A NPAS4–NuA4 complex couples synaptic activity to DNA repair

Calcineurin dephosphorylates topoisomerase IIβ and regulates the formation of neuronal-activity-induced DNA breaks

(2022) Ilse Delint-Ramirez et al.   MOLECULAR CELL

Neuronal enhancers are hotspots for DNA single-strand break repair

(2021) Wei Wu et al.   NATURE

The central role of DNA damage in the ageing process

(2021) Björn Schumacher et al.   NATURE

Incorporation of a nucleoside analog maps genome repair sites in postmitotic human neurons

(2021) Dylan A. Reid et al.   SCIENCE

De Novo KAT5 Variants Cause a Syndrome with Recognizable Facial Dysmorphisms, Cerebellar Atrophy, Sleep Disturbance, and Epilepsy

(2020) Jonathan Humbert et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Bidirectional perisomatic inhibitory plasticity of a Fos neuronal network

(2020) Ee-Lynn Yap et al.   NATURE

ARNT2 Tunes Activity-Dependent Gene Expression through NCoR2-Mediated Repression and NPAS4-Mediated Activation

(2019) Nikhil Sharma et al.   NEURON

Mutations in ACTL6B Cause Neurodevelopmental Deficits and Epilepsy and Lead to Loss of Dendrites in Human Neurons

(2019) Scott Bell et al.   AMERICAN JOURNAL OF HUMAN GENETICS

SIRT6 Is Responsible for More Efficient DNA Double-Strand Break Repair in Long-Lived Species

(2019) Xiao Tian et al.   CELL

Release of paused RNA polymerase II at specific loci favors DNA double-strand-break formation and promotes cancer translocations

(2019) Gaetano Ivan Dellino et al.   NATURE GENETICS

DoubletFinder: Doublet Detection in Single-Cell RNA Sequencing Data Using Artificial Nearest Neighbors

(2019) Christopher S. McGinnis et al.   Cell Systems

Comprehensive Integration of Single-Cell Data

(2019) Tim Stuart et al.   CELL

Peak calling by Sparse Enrichment Analysis for CUT&RUN chromatin profiling

(2019) Michael P. Meers et al.   Epigenetics & Chromatin

Genomic Decoding of Neuronal Depolarization by Stimulus-Specific NPAS4 Heterodimers

(2019) G. Stefano Brigidi et al.   CELL

Regulation of lifespan by neural excitation and REST

(2019) Joseph M. Zullo et al.   NATURE

Targeted in situ genome-wide profiling with high efficiency for low cell numbers

(2018) Peter J Skene et al.   Nature Protocols

20 Years of Mre11 Biology: No End in Sight

(2018) Tanya T. Paull   MOLECULAR CELL

Activity-Regulated Transcription: Bridging the Gap between Neural Activity and Behavior

(2018) Ee-Lynn Yap et al.   NEURON

Simple multiplexed PCR-based barcoding of DNA for ultrasensitive mutation detection by next-generation sequencing

(2017) Anders Ståhlberg et al.   Nature Protocols

Aging and neurodegeneration are associated with increased mutations in single human neurons

(2017) Michael A. Lodato et al.   SCIENCE

An efficient targeted nuclease strategy for high-resolution mapping of DNA binding sites

(2017) Peter J Skene et al.   eLife

Mre11 Is Essential for the Removal of Lethal Topoisomerase 2 Covalent Cleavage Complexes

(2016) Nguyen Ngoc Hoa et al.   MOLECULAR CELL

EP400 Deposits H3.3 into Promoters and Enhancers during Gene Activation

(2016) Suman K. Pradhan et al.   MOLECULAR CELL

The TIP60 Complex Regulates Bivalent Chromatin Recognition by 53BP1 through Direct H4K20me Binding and H2AK15 Acetylation

(2016) Karine Jacquet et al.   MOLECULAR CELL

Depletion of Tip60 from In Vivo Cardiomyocytes Increases Myocyte Density, Followed by Cardiac Dysfunction, Myocyte Fallout and Lethality

(2016) Joseph B. Fisher et al.   PLoS One

Activity-Induced DNA Breaks Govern the Expression of Neuronal Early-Response Genes

(2015) Ram Madabhushi et al.   CELL

R loops regulate promoter-proximal chromatin architecture and cellular differentiation

(2015) Poshen B Chen et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Epigenomic Signatures of Neuronal Diversity in the Mammalian Brain

(2015) Alisa Mo et al.   NEURON

Transcriptional elongation requires DNA break-induced signalling

(2015) Heeyoun Bunch et al.   Nature Communications

R loops regulate promoter-proximal chromatin architecture and cellular differentiation

(2015) Poshen B Chen et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Transcript-RNA-templated DNA recombination and repair

(2014) Havva Keskin et al.   NATURE

The dynamics and regulators of cell fate decisions are revealed by pseudotemporal ordering of single cells

(2014) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

featureCounts: an efficient general purpose program for assigning sequence reads to genomic features

(2013) Y. Liao et al.   BIOINFORMATICS

DNA repair mechanisms in dividing and non-dividing cells

(2013) Teruaki Iyama et al.   DNA REPAIR

The activity-dependent transcription factor NPAS4 regulates domain-specific inhibition

(2013) Brenda L. Bloodgood et al.   NATURE

Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position

(2013) Jason D Buenrostro et al.   NATURE METHODS

Physiologic brain activity causes DNA double-strand breaks in neurons, with exacerbation by amyloid-β

(2013) Elsa Suberbielle et al.   NATURE NEUROSCIENCE

Acetylation limits 53BP1 association with damaged chromatin to promote homologous recombination

(2013) Jiangbo Tang et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Hdac6 regulates Tip60-p400 function in stem cells

(2013) Poshen B Chen et al.   eLife

An integrated encyclopedia of DNA elements in the human genome

(2012)   NATURE

Mre11 regulates CtIP-dependent double-strand break repair by interaction with CDK2

(2012) Jeffrey Buis et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Whole-Exome Sequencing and Homozygosity Analysis Implicate Depolarization-Regulated Neuronal Genes in Autism

(2012) Maria H. Chahrour et al.   PLoS Genetics

MEME-ChIP: motif analysis of large DNA datasets

(2011) Philip Machanick et al.   BIOINFORMATICS

RNA-driven genetic changes in bacteria and in human cells

(2011) Ying Shen et al.   MUTATION RESEARCH-FUNDAMENTAL AND MOLECULAR MECHANISMS OF MUTAGENESIS

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

Histone H3 methylation links DNA damage detection to activation of the tumour suppressor Tip60

(2009) Yingli Sun et al.   NATURE CELL BIOLOGY

Mre11 Nuclease Activity Has Essential Roles in DNA Repair and Genomic Stability Distinct from ATM Activation

(2008) Jeffrey Buis et al.   CELL

Functional Characterization of Basic Helix-Loop-Helix-PAS Type Transcription Factor NXFin Vivo

(2008) Norihisa Ooe et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Activity-dependent regulation of inhibitory synapse development by Npas4

(2008) Yingxi Lin et al.   NATURE

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY