CDKL5 kinase controls transcription‐coupled responses to DNA damage

Expanding the phenotype of the CDKL5 deficiency disorder: Are seizures mandatory?

(2020) Conor I. MacKay et al.   AMERICAN JOURNAL OF MEDICAL GENETICS PART A

Regulation of the RNAPII Pool Is Integral to the DNA Damage Response

(2020) Ana Tufegdžić Vidaković et al.   CELL

A kinome-wide screen identifies a CDKL5-SOX9 regulatory axis in epithelial cell death and kidney injury

(2020) Ji Young Kim et al.   Nature Communications

The Dark Kinase Knowledgebase: an online compendium of knowledge and experimental results of understudied kinases

(2020) Matthew E Berginski et al.   NUCLEIC ACIDS RESEARCH

Efficient Single-Strand Break Repair Requires Binding to Both Poly(ADP-Ribose) and DNA by the Central BRCT Domain of XRCC1

(2019) Luis M. Polo et al.   Cell Reports

WWP2 ubiquitylates RNA polymerase II for DNA-PK-dependent transcription arrest and repair at DNA breaks

(2019) Pierre Caron et al.   GENES & DEVELOPMENT

MARMoSET – Extracting Publication-Ready Mass Spectrometry Metadata from RAW Files

(2019) Marina Kiweler et al.   MOLECULAR & CELLULAR PROTEOMICS

The hunt for RNA polymerase II elongation factors: a historical perspective

(2019) Ronald C. Conaway et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Rett Syndrome and CDKL5 Deficiency Disorder: From Bench to Clinic

(2019) Shilpa D. Kadam et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Protein Dynamics in Complex DNA Lesions

(2018) Radoslav Aleksandrov et al.   MOLECULAR CELL

Phosphoproteomic screening identifies physiological substrates of the CDKL5 kinase

(2018) Ivan M Muñoz et al.   EMBO JOURNAL

Chemical genetic identification of CDKL5 substrates reveals its role in neuronal microtubule dynamics

(2018) Lucas L Baltussen et al.   EMBO JOURNAL

A new consensus for evaluating CDKL5/STK9‐dependent signalling mechanisms

(2018) Patrick A Eyers   EMBO JOURNAL

UniProt: a worldwide hub of protein knowledge

(2018)   NUCLEIC ACIDS RESEARCH

The PRIDE database and related tools and resources in 2019: improving support for quantification data

(2018) Yasset Perez-Riverol et al.   NUCLEIC ACIDS RESEARCH

STRING v11: protein–protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets

(2018) Damian Szklarczyk et al.   NUCLEIC ACIDS RESEARCH

RettBASE: Rett syndrome database update

(2017) Rahul Krishnaraj et al.   HUMAN MUTATION

Transcription-Coupled DNA Double-Strand Break Repair: Active Genes Need Special Care

(2017) Aline Marnef et al.   JOURNAL OF MOLECULAR BIOLOGY

Evaluation of Parameters for Confident Phosphorylation Site Localization Using an Orbitrap Fusion Tribrid Mass Spectrometer

(2017) Samantha Ferries et al.   JOURNAL OF PROTEOME RESEARCH

ATM, ATR, and DNA-PK: The Trinity at the Heart of the DNA Damage Response

(2017) Andrew N. Blackford et al.   MOLECULAR CELL

First-in-Class Chemical Probes against Poly(ADP-ribose) Glycohydrolase (PARG) Inhibit DNA Repair with Differential Pharmacology to Olaparib

(2016) Dominic I. James et al.   ACS Chemical Biology

Robust hyperparameter estimation protects against hypervariable genes and improves power to detect differential expression

(2016) Belinda Phipson et al.   Annals of Applied Statistics

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

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

The MaxQuant computational platform for mass spectrometry-based shotgun proteomics

(2016) Stefka Tyanova et al.   Nature Protocols

Topoisomerases and the regulation of neural function

(2016) Peter J. McKinnon   NATURE REVIEWS NEUROSCIENCE

Chemical genetic discovery of PARP targets reveals a role for PARP-1 in transcription elongation

(2016) B. A. Gibson et al.   SCIENCE

Cells and Stripes: A novel quantitative photo-manipulation technique

(2016) Martin Mistrik et al.   Scientific Reports

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

(2015) Ram Madabhushi et al.   CELL

Screen identifies bromodomain protein ZMYND8 in chromatin recognition of transcription-associated DNA damage that promotes homologous recombination

(2015) Fade Gong et al.   GENES & DEVELOPMENT

Assembly of the Elongin A Ubiquitin Ligase Is Regulated by Genotoxic and Other Stresses

(2015) Juston C. Weems et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Mutations in the TTDN1 Gene Are Associated with a Distinct Trichothiodystrophy Phenotype

(2015) Elizabeth R. Heller et al.   JOURNAL OF INVESTIGATIVE DERMATOLOGY

Readers of poly(ADP-ribose): designed to be fit for purpose

(2015) Federico Teloni et al.   NUCLEIC ACIDS RESEARCH

limma powers differential expression analyses for RNA-sequencing and microarray studies

(2015) Matthew E. Ritchie et al.   NUCLEIC ACIDS RESEARCH

The DNA-dependent protein kinase: A multifunctional protein kinase with roles in DNA double strand break repair and mitosis

(2015) Nicholas Jette et al.   PROGRESS IN BIOPHYSICS & MOLECULAR BIOLOGY

Liquid demixing of intrinsically disordered proteins is seeded by poly(ADP-ribose)

(2015) Matthias Altmeyer et al.   Nature Communications

The Split-Apply-Combine Strategy for Data Analysis

(2015) Hadley Wickham   Journal of Statistical Software

Isobaric Labeling-Based Relative Quantification in Shotgun Proteomics

(2014) Navin Rauniyar et al.   JOURNAL OF PROTEOME RESEARCH

Topoisomerases facilitate transcription of long genes linked to autism

(2013) Ian F. King et al.   NATURE

The ATM protein kinase: regulating the cellular response to genotoxic stress and more

(2013) Yosef Shiloh et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

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

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

DNA Damage Sensing by the ATM and ATR Kinases

(2013) A. Marechal et al.   Cold Spring Harbor Perspectives in Biology

The CDKL5 disorder is an independent clinical entity associated with early-onset encephalopathy

(2012) Stephanie Fehr et al.   EUROPEAN JOURNAL OF HUMAN GENETICS

OMERO: flexible, model-driven data management for experimental biology

(2012) Chris Allan et al.   NATURE METHODS

DNAPKcs-dependent arrest of RNA polymerase II transcription in the presence of DNA breaks

(2012) Tibor Pankotai et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

ATM-Dependent Chromatin Changes Silence Transcription In cis to DNA Double-Strand Breaks

(2010) Niraj M. Shanbhag et al.   CELL

Poly(ADP-ribose)-Dependent Regulation of DNA Repair by the Chromatin Remodeling Enzyme ALC1

(2009) D. Ahel et al.   SCIENCE

Poly(ADP-ribose)-binding zinc finger motifs in DNA repair/checkpoint proteins

(2008) Ivan Ahel et al.   NATURE