Related references
Note: Only part of the references are listed.Global analysis of pre-mRNA subcellular localization following splicing inhibition by spliceostatin A
Rei Yoshimoto et al.
RNA (2017)
RNA-binding protein RBM14 regulates dissociation and association of non-homologous end joining proteins
Nicholas E. Simon et al.
CELL CYCLE (2017)
Transcription Impacts the Efficiency of mRNA Translation via Co-transcriptional N6-adenosine Methylation
Boris Slobodin et al.
CELL (2017)
UV Irradiation Induces a Non-coding RNA that Functionally Opposes the Protein Encoded by the Same Gene
Laura Williamson et al.
CELL (2017)
Coexisting Liquid Phases Underlie Nucleolar Subcompartments
Marina Feric et al.
CELL (2016)
Large-scale analysis of genome and transcriptome alterations in multiple tumors unveils novel cancer-relevant splicing networks
Endre Sebestyen et al.
GENOME RESEARCH (2016)
The mRNA-bound proteome of the early fly embryo
Hans-Hermann Wessels et al.
GENOME RESEARCH (2016)
Roles of RNA-Binding Proteins in DNA Damage Response
Mihoko Kai
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES (2016)
Sec16 alternative splicing dynamically controls COPII transport efficiency
Ilka Wilhelmi et al.
Nature Communications (2016)
SRSF10 Connects DNA Damage to the Alternative Splicing of Transcripts Encoding Apoptosis, Cell-Cycle Control, and DNA Repair Factors
Lulzim Shkreta et al.
CELL REPORTS (2016)
Multiomic Analysis of the UV-Induced DNA Damage Response
Stefan Boeing et al.
CELL REPORTS (2016)
INSPEcT: a computational tool to infer mRNA synthesis, processing and degradation dynamics from RNA- and 4sU-seq time course experiments
Stefano de Pretis et al.
BIOINFORMATICS (2015)
Cell cycle regulation of human DNA repair and chromatin remodeling genes
Robin Mjelle et al.
DNA REPAIR (2015)
Detained introns are a novel, widespread class of post-transcriptionally spliced introns
Paul L. Boutz et al.
GENES & DEVELOPMENT (2015)
Tracking Distinct RNA Populations Using Efficient and Reversible Covalent Chemistry
Erin E. Duffy et al.
MOLECULAR CELL (2015)
A novel role for the mono-ADP-ribosyltransferase PARP14/ARTD8 in promoting homologous recombination and protecting against replication stress
Claudia M. Nicolae et al.
NUCLEIC ACIDS RESEARCH (2015)
Casein kinase II promotes target silencing by miRISC through direct phosphorylation of the DEAD-box RNA helicase CGH-1
Amelia F. Alessi et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2015)
Leveraging transcript quantification for fast computation of alternative splicing profiles
Gael P. Alamancos et al.
RNA (2015)
SF3B1 Association with Chromatin Determines Splicing Outcomes
Nir Kfir et al.
CELL REPORTS (2015)
HTSeq-a Python framework to work with high-throughput sequencing data
Simon Anders et al.
BIOINFORMATICS (2015)
RNA helicase DDX21 coordinates transcription and ribosomal RNA processing
Eliezer Calo et al.
NATURE (2015)
Label-Free Protein-RNA Interactome Analysis Identifies Khsrp Signaling Downstream of the p38/Mk2 Kinase Complex as a Critical Modulator of Cell Cycle Progression
Jorge Boucas et al.
PLOS ONE (2015)
The RNA Splicing Response to DNA Damage
Lulzim Shkreta et al.
BIOMOLECULES (2015)
Schlafen-11 sensitizes colorectal carcinoma cells to irinotecan
Li Tian et al.
ANTI-CANCER DRUGS (2014)
A quantitative 14-3-3 interaction screen connects the nuclear exosome targeting complex to the DNA damage response
Melanie Blasius et al.
GENES & DEVELOPMENT (2014)
Widespread intron retention in mammals functionally tunes transcriptomes
Ulrich Braunschweig et al.
GENOME RESEARCH (2014)
ALS-associated mutation FUS-R521C causes DNA damage and RNA splicing defects
Haiyan Qiu et al.
JOURNAL OF CLINICAL INVESTIGATION (2014)
FUS is Phosphorylated by DNA-PK and Accumulates in the Cytoplasm after DNA Damage
Qiudong Deng et al.
JOURNAL OF NEUROSCIENCE (2014)
MOV10 Is a 5′ to 3′ RNA Helicase Contributing to UPF1 mRNA Target Degradation by Translocation along 3′ UTRs
Lea H. Gregersen et al.
MOLECULAR CELL (2014)
A census of human RNA-binding proteins
Stefanie Gerstberger et al.
NATURE REVIEWS GENETICS (2014)
Mechanisms for U2AF to define 3′ splice sites and regulate alternative splicing in the human genome
Changwei Shao et al.
NATURE STRUCTURAL & MOLECULAR BIOLOGY (2014)
YB-1 disrupts mismatch repair complex formation, interferes with MutSα recruitment on mismatch and inhibits mismatch repair through interacting with PCNA
Y-W Chang et al.
ONCOGENE (2014)
DNA damage: RNA-binding proteins protect from near and far
Martin Dutertre et al.
TRENDS IN BIOCHEMICAL SCIENCES (2014)
The RNA helicase FRH is an ATP-dependent regulator of CK1a in the circadian clock of Neurospora crassa
Linda Lauinger et al.
NATURE COMMUNICATIONS (2014)
Widespread Inhibition of Posttranscriptional Splicing Shapes the Cellular Transcriptome following Heat Shock
Reut Shalgi et al.
CELL REPORTS (2014)
Differential protein occupancy profiling of the mRNA transcriptome
Markus Schueler et al.
GENOME BIOLOGY (2014)
Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
Michael I. Love et al.
GENOME BIOLOGY (2014)
Separation of long RNA by agarose-formaldehyde gel electrophoresis
Farrah H. Mansour et al.
ANALYTICAL BIOCHEMISTRY (2013)
CHD4 in the DNA-damage response and cell cycle progression: not so NuRDy now
Aoife O'Shaughnessy et al.
BIOCHEMICAL SOCIETY TRANSACTIONS (2013)
DDX3 regulates DNA damage-induced apoptosis and p53 stabilization
Mianen Sun et al.
BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH (2013)
Direct Competition between hnRNP C and U2AF65 Protects the Transcriptome from the Exonization of Alu Elements
Kathi Zarnack et al.
CELL (2013)
The Complexity of Human Ribosome Biogenesis Revealed by Systematic Nucleolar Screening of Pre-rRNA Processing Factors
Lionel Tafforeau et al.
MOLECULAR CELL (2013)
Proteome-wide Identification of Poly(ADP-Ribosyl)ation Targets in Different Genotoxic Stress Responses
Stephanie Jungmichel et al.
MOLECULAR CELL (2013)
Genome-wide Analysis Reveals SR Protein Cooperation and Competition in Regulated Splicing
Shatakshi Pandit et al.
MOLECULAR CELL (2013)
A compendium of RNA-binding motifs for decoding gene regulation
Debashish Ray et al.
NATURE (2013)
Interaction of FUS and HDAC1 regulates DNA damage response and repair in neurons
Wen-Yuan Wang et al.
NATURE NEUROSCIENCE (2013)
Diverse stresses dramatically alter genome-wide p53 binding and transactivation landscape in human cancer cells
Daniel Menendez et al.
NUCLEIC ACIDS RESEARCH (2013)
The RNA helicase p68 (DDX5) is selectively required for the induction of p53-dependent p21 expression and cell-cycle arrest after DNA damage
S. M. Nicol et al.
ONCOGENE (2013)
Requirement of Heterogeneous Nuclear Ribonucleoprotein C for BRCA Gene Expression and Homologous Recombination
Rachel W. Anantha et al.
PLOS ONE (2013)
RNA Helicase DDX3 Is a Regulatory Subunit of Casein Kinase 1 in Wnt-β-Catenin Signaling
Cristina-Maria Cruciat et al.
SCIENCE (2013)
Protein Interaction Network of the Mammalian Hippo Pathway Reveals Mechanisms of Kinase-Phosphatase Interactions
Amber L. Couzens et al.
SCIENCE SIGNALING (2013)
TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions
Daehwan Kim et al.
GENOME BIOLOGY (2013)
Metabolic Labeling of Newly Transcribed RNA for High Resolution Gene Expression Profiling of RNA Synthesis, Processing and Decay in Cell Culture
Bernd Raedle et al.
JOVE-JOURNAL OF VISUALIZED EXPERIMENTS (2013)
DP97, a DEAD box DNA/RNA helicase, is a target gene-selective co-regulator of the constitutive androstane receptor
Yuichiro Kanno et al.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS (2012)
Insights into RNA Biology from an Atlas of Mammalian mRNA-Binding Proteins
Alfredo Castello et al.
CELL (2012)
Insights into p53 transcriptional function via genome-wide chromatin occupancy and gene expression analysis
F. Nikulenkov et al.
CELL DEATH AND DIFFERENTIATION (2012)
Ultrashort and progressive 4sU-tagging reveals key characteristics of RNA processing at nucleotide resolution
Lukas Windhager et al.
GENOME RESEARCH (2012)
Dynamic Protein-Protein Interaction Wiring of the Human Spliceosome
Anna Hegele et al.
MOLECULAR CELL (2012)
Regulation of DNA-End Resection by hnRNPU-like Proteins Promotes DNA Double-Strand Break Signaling and Repair
Sophie E. Polo et al.
MOLECULAR CELL (2012)
Proteomic Investigations Reveal a Role for RNA Processing Factor THRAP3 in the DNA Damage Response
Petra Beli et al.
MOLECULAR CELL (2012)
The mRNA-Bound Proteome and Its Global Occupancy Profile on Protein-Coding Transcripts
Alexander G. Baltz et al.
MOLECULAR CELL (2012)
A genome-wide homologous recombination screen identifies the RNA-binding protein RBMX as a component of the DNA-damage response
Britt Adamson et al.
NATURE CELL BIOLOGY (2012)
PARP activation regulates the RNA-binding protein NONO in the DNA damage response to DNA double-strand breaks
Jana Krietsch et al.
NUCLEIC ACIDS RESEARCH (2012)
Putative DNA/RNA helicase Schlafen-11 (SLFN11) sensitizes cancer cells to DNA-damaging agents
Gabriele Zoppoli et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2012)
RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome
Bo Li et al.
BMC BIOINFORMATICS (2011)
Is post-transcriptional stabilization, splicing and translation of selective mRNAs a key to the DNA damage response?
H. Christian Reinhardt et al.
CELL CYCLE (2011)
Dynamics of DNA damage response proteins at DNA breaks: a focus on protein modifications
Sophie E. Polo et al.
GENES & DEVELOPMENT (2011)
Phosphorylation of RIG-I by Casein Kinase II Inhibits Its Antiviral Response
Zhiguo Sun et al.
JOURNAL OF VIROLOGY (2011)
Quantitative Proteomics and Dynamic Imaging of the Nucleolus Reveal Distinct Responses to UV and Ionizing Radiation
Henna M. Moore et al.
MOLECULAR & CELLULAR PROTEOMICS (2011)
The Ewing Sarcoma Protein Regulates DNA Damage-Induced Alternative Splicing
Maria Paola Paronetto et al.
MOLECULAR CELL (2011)
DNA Unwinding by ASCC3 Helicase Is Coupled to ALKBH3-Dependent DNA Alkylation Repair and Cancer Cell Proliferation
Sebastian Dango et al.
MOLECULAR CELL (2011)
Transcriptome-wide Analysis of Regulatory Interactions of the RNA-Binding Protein HuR
Svetlana Lebedeva et al.
MOLECULAR CELL (2011)
Metabolic labeling of RNA uncovers principles of RNA production and degradation dynamics in mammalian cells
Michal Rabani et al.
NATURE BIOTECHNOLOGY (2011)
The splicing-factor related protein SFPQ/PSF interacts with RAD51D and is necessary for homology-directed repair and sister chromatid cohesion
Changanamkandath Rajesh et al.
NUCLEIC ACIDS RESEARCH (2011)
REPAIRtoire-a database of DNA repair pathways
Kaja Milanowska et al.
NUCLEIC ACIDS RESEARCH (2011)
The involvement of human RECQL4 in DNA double-strand break repair
Dharmendra Kumar Singh et al.
AGING CELL (2010)
BEDTools: a flexible suite of utilities for comparing genomic features
Aaron R. Quinlan et al.
BIOINFORMATICS (2010)
baySeq: Empirical Bayesian methods for identifying differential expression in sequence count data
Thomas J. Hardcastle et al.
BMC BIOINFORMATICS (2010)
Transcriptome-wide Identification of RNA-Binding Protein and MicroRNA Target Sites by PAR-CLIP
Markus Hafner et al.
CELL (2010)
Site-specific Phosphorylation Dynamics of the Nuclear Proteome during the DNA Damage Response
Martin V. Bennetzen et al.
MOLECULAR & CELLULAR PROTEOMICS (2010)
The Nucleolus under Stress
Severine Boulon et al.
MOLECULAR CELL (2010)
The DNA Damage Response: Making It Safe to Play with Knives
Alberto Ciccia et al.
MOLECULAR CELL (2010)
ATM-Dependent and -Independent Dynamics of the Nuclear Phosphoproteome After DNA Damage
Ariel Bensimon et al.
SCIENCE SIGNALING (2010)
Genome-Wide Association between Branch Point Properties and Alternative Splicing
Andre Corvelo et al.
PLOS COMPUTATIONAL BIOLOGY (2010)
A Genome-wide siRNA Screen Reveals Diverse Cellular Processes and Pathways that Mediate Genome Stability
Renee D. Paulsen et al.
MOLECULAR CELL (2009)
The DNA-damage response in human biology and disease
Stephen P. Jackson et al.
NATURE (2009)
Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists
Da Wei Huang et al.
NUCLEIC ACIDS RESEARCH (2009)
SROOGLE: webserver for integrative, user-friendly visualization of splicing signals
Schraga Schwartz et al.
NUCLEIC ACIDS RESEARCH (2009)
Global analysis of cellular protein translation by pulsed SILAC
Bjoern Schwanhaeusser et al.
PROTEOMICS (2009)
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
Ben Langmead et al.
GENOME BIOLOGY (2009)
Automatic detection of exonic splicing enhancers (ESEs) using SVMs
Britta Mersch et al.
BMC BIOINFORMATICS (2008)
A role for DEAD box 1 at DNA double-strand breaks
Lei Li et al.
MOLECULAR AND CELLULAR BIOLOGY (2008)
MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification
Juergen Cox et al.
NATURE BIOTECHNOLOGY (2008)
Transcriptional control of human p53-regulated genes
Todd Riley et al.
NATURE REVIEWS MOLECULAR CELL BIOLOGY (2008)
The DNA damage response: Ten years after
J. Wade Harper et al.
MOLECULAR CELL (2007)
Spliceostatin A targets SF3b and inhibits both splicing and nuclear retention of pre-mRNA
Daisuke Kaida et al.
NATURE CHEMICAL BIOLOGY (2007)
ATM and ATR substrate analysis reveals extensive protein networks responsive to DNA damage
Shuhei Matsuoka et al.
SCIENCE (2007)
Clonogenic assay of cells in vitro
Nicolaas A. P. Franken et al.
NATURE PROTOCOLS (2006)
Maximum entropy modeling of short sequence motifs with applications to RNA splicing signals
G Yeo et al.
JOURNAL OF COMPUTATIONAL BIOLOGY (2004)
Disruption of the nucleolus mediates stabilization of p53 in response to DNA damage and other stresses
CP Rubbi et al.
EMBO JOURNAL (2003)
Novel functional role of CA repeats and hnRNP L in RNA stability
JY Hui et al.
RNA (2003)
Regulation of nuclear receptor transcriptional activity by a novel DEAD box RNA helicase (DP97)
RR Rajendran et al.
JOURNAL OF BIOLOGICAL CHEMISTRY (2003)
Directed proteomic analysis of the human nucleolus
JS Andersen et al.
CURRENT BIOLOGY (2002)
Directed proteomic analysis of the human nucleolus
JS Andersen et al.
CURRENT BIOLOGY (2002)
DNA double strand break repair and chromosomal translocation: Lessons from animal models
DO Ferguson et al.
ONCOGENE (2001)
Deficiency of human BRCA2 leads to impaired homologous recombination but maintains normal nonhomologous end joining
F Xia et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2001)
The DNA damage response: putting checkpoints in perspective
BBS Zhou et al.
NATURE (2000)
Dbp10p, a putative RNA helicase from Saccharomyces cerevisiae, is required for ribosome biogenesis
F Burger et al.
NUCLEIC ACIDS RESEARCH (2000)
Share Paper
