SOG1 activator and MYB3R repressors regulate a complex DNA damage network in Arabidopsis

Census and evaluation of p53 target genes

(2017) M Fischer   ONCOGENE

Increased Phosphorylation of Ser-Gln Sites on SUPPRESSOR OF GAMMA RESPONSE1 Strengthens the DNA Damage Response inArabidopsis thaliana

(2017) Kaoru Okamoto Yoshiyama et al.   PLANT CELL

Function of the Plant DNA Polymerase Epsilon in Replicative Stress Sensing, a Genetic Analysis

(2017) José-Antonio Pedroza-García et al.   PLANT PHYSIOLOGY

Mechanisms Used by Plants to Cope with DNA Damage

(2016) Zhubing Hu et al.   Annual Review of Plant Biology

Cistrome and Epicistrome Features Shape the Regulatory DNA Landscape

(2016) Ronan C. O’Malley et al.   CELL

The plant‐specific CDKB1‐CYCB1 complex mediates homologous recombination repair inArabidopsis

(2016) Annika K Weimer et al.   EMBO JOURNAL

deepTools2: a next generation web server for deep-sequencing data analysis

(2016) Fidel Ramírez et al.   NUCLEIC ACIDS RESEARCH

PANTHER version 11: expanded annotation data from Gene Ontology and Reactome pathways, and data analysis tool enhancements

(2016) Huaiyu Mi et al.   NUCLEIC ACIDS RESEARCH

Transcriptional repression by MYB3R proteins regulates plant organ growth

(2015) K. Kobayashi et al.   EMBO JOURNAL

DNA double-strand breaks induce the expression of flavin-containing monooxygenase and reduce root meristem size inArabidopsis thaliana

(2015) Poyu Chen et al.   GENES TO CELLS

Error-Prone Repair of DNA Double-Strand Breaks

(2015) Kasey Rodgers et al.   JOURNAL OF CELLULAR PHYSIOLOGY

The importance of safeguarding genome integrity in germination and seed longevity

(2015) Wanda M. Waterworth et al.   JOURNAL OF EXPERIMENTAL BOTANY

Reshaping Chromatin after DNA Damage: The Choreography of Histone Proteins

(2015) Sophie E. Polo   JOURNAL OF MOLECULAR BIOLOGY

Quantitative Phosphoproteomics of the Ataxia Telangiectasia-Mutated (ATM) and Ataxia Telangiectasia-Mutated and Rad3-related (ATR) Dependent DNA Damage Response inArabidopsis thaliana

(2015) Elisabeth Roitinger et al.   MOLECULAR & CELLULAR PROTEOMICS

Aluminum-Dependent Terminal Differentiation of the Arabidopsis Root Tip Is Mediated through an ATR-, ALT2-, and SOG1-Regulated Transcriptional Response

(2015) Caroline A. Sjogren et al.   PLANT CELL

Functional Conservation in the SIAMESE-RELATED Family of Cyclin-Dependent Kinase Inhibitors in Land Plants

(2015) Narender Kumar et al.   PLANT CELL

Deficiency of theArabidopsisHelicase RTEL1 Triggers a SOG1-Dependent Replication Checkpoint in Response to DNA Cross-Links

(2015) Zhubing Hu et al.   PLANT CELL

NAC transcription factors in plant multiple abiotic stress responses: progress and prospects

(2015) Hongbo Shao et al.   Frontiers in Plant Science

The transcription factor p53: Not a repressor, solely an activator

(2014) Martin Fischer et al.   CELL CYCLE

DNA recombination in somatic plant cells: mechanisms and evolutionary consequences

(2014) Alexander Knoll et al.   CHROMOSOME RESEARCH

UV-B inhibition of hypocotyl growth in etiolated Arabidopsis thaliana seedlings is a consequence of cell cycle arrest initiated by photodimer accumulation

(2014) Jessica J. Biever et al.   JOURNAL OF EXPERIMENTAL BOTANY

Araport: the Arabidopsis Information Portal

(2014) Vivek Krishnakumar et al.   NUCLEIC ACIDS RESEARCH

The Arabidopsis SIAMESE-RELATED Cyclin-Dependent Kinase Inhibitors SMR5 and SMR7 Regulate the DNA Damage Checkpoint in Response to Reactive Oxygen Species

(2014) D. Yi et al.   PLANT CELL

Microbial Pathogens Trigger Host DNA Double-Strand Breaks Whose Abundance Is Reduced by Plant Defense Responses

(2014) Junqi Song et al.   PLoS Pathogens

Causes of Genome Instability

(2013) Andrés Aguilera et al.   Annual Review of Genetics

Systemic Acquired Resistance: Turning Local Infection into Global Defense

(2013) Zheng Qing Fu et al.   Annual Review of Plant Biology

ATM-mediated phosphorylation of SOG1 is essential for the DNA damage response in Arabidopsis

(2013) Kaoru O Yoshiyama et al.   EMBO REPORTS

Global genomic profiling reveals an extensive p53-regulated autophagy program contributing to key p53 responses

(2013) D. Kenzelmann Broz et al.   GENES & DEVELOPMENT

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

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

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

DREM 2.0: Improved reconstruction of dynamic regulatory networks from time-series expression data

(2012) Marcel H Schulz et al.   BMC Systems Biology

A Role for Small RNAs in DNA Double-Strand Break Repair

(2012) Wei Wei et al.   CELL

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Replication factor C1 (RFC1) is required for double-strand break repair during meiotic homologous recombination in Arabidopsis

(2012) Yang Liu et al.   PLANT JOURNAL

The DNA Replication Factor RFC1 Is Required for Interference-Sensitive Meiotic Crossovers in Arabidopsis thaliana

(2012) Yingxiang Wang et al.   PLoS Genetics

BRCT domains

(2011) Charles Chung Yun Leung et al.   CELL CYCLE

DNA glycosylases: in DNA repair and beyond

(2011) Angelika L. Jacobs et al.   CHROMOSOMA

Kinetic analysis of DNA double-strand break repair pathways in Arabidopsis

(2011) Cyril Charbonnel et al.   DNA REPAIR

Antioxidant response of Arabidopsis plants to gamma irradiation: Genome-wide expression profiling of the ROS scavenging and signal transduction pathways

(2011) Dong Sub Kim et al.   JOURNAL OF PLANT PHYSIOLOGY

GMI1, a structural-maintenance-of-chromosomes-hinge domain-containing protein, is involved in somatic homologous recombination in Arabidopsis

(2011) Gudrun Böhmdorfer et al.   PLANT JOURNAL

Mutations in MYB3R1 and MYB3R4 Cause Pleiotropic Developmental Defects and Preferential Down-Regulation of Multiple G2/M-Specific Genes in Arabidopsis

(2011) N. Haga et al.   PLANT PHYSIOLOGY

REVIGO Summarizes and Visualizes Long Lists of Gene Ontology Terms

(2011) Fran Supek et al.   PLoS One

Programmed induction of endoreduplication by DNA double-strand breaks in Arabidopsis

(2011) S. Adachi et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Mechanisms of dNTP supply that play an essential role in maintaining genome integrity in eukaryotic cells

(2010) Hiroyuki Niida et al.   CANCER SCIENCE

A shared DNA-damage-response pathway for induction of stem-cell death by UVB and by gamma irradiation

(2010) T. Furukawa et al.   DNA REPAIR

The DNA Damage Response: Making It Safe to Play with Knives

(2010) Alberto Ciccia et al.   MOLECULAR CELL

Simple Combinations of Lineage-Determining Transcription Factors Prime cis-Regulatory Elements Required for Macrophage and B Cell Identities

(2010) Sven Heinz et al.   MOLECULAR CELL

AGRIS: the Arabidopsis Gene Regulatory Information Server, an update

(2010) A. Yilmaz et al.   NUCLEIC ACIDS RESEARCH

Xrcc1-dependent and Ku-dependent DNA double-strand break repair kinetics in Arabidopsis plants

(2010) Cyril Charbonnel et al.   PLANT JOURNAL

MEME SUITE: tools for motif discovery and searching

(2009) T. L. Bailey et al.   NUCLEIC ACIDS RESEARCH

Epigenetic Regulation, Somatic Homologous Recombination, and Abscisic Acid Signaling Are Influenced by DNA Polymerase   Mutation in Arabidopsis

(2009) H. Yin et al.   PLANT CELL

A novel ATM-dependent X-ray-inducible gene is essential for both plant meiosis and gametogenesis

(2009) Philip J. Dean et al.   PLANT JOURNAL

Biochemical Characterization of AtRECQ3 Reveals Significant Differences Relative to Other RecQ Helicases

(2009) D. Kobbe et al.   PLANT PHYSIOLOGY

Suppressor of gamma response 1 (SOG1) encodes a putative transcription factor governing multiple responses to DNA damage

(2009) K. Yoshiyama et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Posttranslational Modification of p53: Cooperative Integrators of Function

(2009) D. W. Meek et al.   Cold Spring Harbor Perspectives in Biology

VennMaster: Area-proportional Euler diagrams for functional GO analysis of microarrays

(2008) Hans A Kestler et al.   BMC BIOINFORMATICS