Insights into the adaptive response of Arabidopsis thaliana to prolonged thermal stress by ribosomal profiling and RNA-Seq

Global Analysis of the RNA-Protein Interaction and RNA Secondary Structure Landscapes of the Arabidopsis Nucleus

(2015) Sager J. Gosai et al.   MOLECULAR CELL

Heat-induced ribosome pausing triggers mRNA co-translational decay in Arabidopsis thaliana

(2015) Rémy Merret et al.   NUCLEIC ACIDS RESEARCH

Quantifying Absolute Protein Synthesis Rates Reveals Principles Underlying Allocation of Cellular Resources

(2014) Gene-Wei Li et al.   CELL

Cotranslational Response to Proteotoxic Stress by Elongation Pausing of Ribosomes

(2013) Botao Liu et al.   MOLECULAR CELL

Widespread Regulation of Translation by Elongation Pausing in Heat Shock

(2013) Reut Shalgi et al.   MOLECULAR CELL

Efficient translation initiation dictates codon usage at gene start

(2013) K. Bentele et al.   Molecular Systems Biology

In vivo genome-wide profiling of RNA secondary structure reveals novel regulatory features

(2013) Yiliang Ding et al.   NATURE

Translational Landscape of Photomorphogenic Arabidopsis

(2013) M.-J. Liu et al.   PLANT CELL

A Rapid Ribosome Profiling Method Elucidates Chloroplast Ribosome Behavior in Vivo

(2013) R. Zoschke et al.   PLANT CELL

Analysis of Genome-Wide Changes in the Translatome of Arabidopsis Seedlings Subjected to Heat Stress

(2013) Emilio Yángüez et al.   PLoS One

Translational dynamics revealed by genome-wide profiling of ribosome footprints in Arabidopsis

(2013) P. Juntawong et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Causes and Effects of N-Terminal Codon Bias in Bacterial Genes

(2013) D. B. Goodman et al.   SCIENCE

XRN4 and LARP1 Are Required for a Heat-Triggered mRNA Decay Pathway Involved in Plant Acclimation and Survival during Thermal Stress

(2013) Rémy Merret et al.   Cell Reports

Differential Translation Tunes Uneven Production of Operon-Encoded Proteins

(2013) Tessa E.F. Quax et al.   Cell Reports

Genome-wide ribosome profiling reveals complex translational regulation in response to oxidative stress

(2012) M. V. Gerashchenko et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

ViennaRNA Package 2.0

(2011) Ronny Lorenz et al.   Algorithms for Molecular Biology

The physiological role of the unfolded protein response in plants

(2011) Adrian A Moreno et al.   BIOLOGICAL RESEARCH

Selective Ribosome Profiling Reveals the Cotranslational Chaperone Action of Trigger Factor In Vivo

(2011) Eugene Oh et al.   CELL

Plastid Proteome Assembly without Toc159: Photosynthetic Protein Import and Accumulation ofN-Acetylated Plastid Precursor Proteins

(2011) Sylvain Bischof et al.   PLANT CELL

How plants sense temperature

(2010) Eric Ruelland et al.   ENVIRONMENTAL AND EXPERIMENTAL BOTANY

The Heat Shock Response: Life on the Verge of Death

(2010) Klaus Richter et al.   MOLECULAR CELL

Mammalian microRNAs predominantly act to decrease target mRNA levels

(2010) Huili Guo et al.   NATURE

All things must pass: contrasts and commonalities in eukaryotic and bacterial mRNA decay

(2010) Joel G. Belasco   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Different sequence signatures in the upstream regions of plant and animal tRNA genes shape distinct modes of regulation

(2010) Gong Zhang et al.   NUCLEIC ACIDS RESEARCH

RNA G-Quadruplexes in the model plant species Arabidopsis thaliana: prevalence and possible functional roles

(2010) Melissa A. Mullen et al.   NUCLEIC ACIDS RESEARCH

Global and local depletion of ternary complex limits translational elongation

(2010) Gong Zhang et al.   NUCLEIC ACIDS RESEARCH

Genome-Wide Analyses of Early Translational Responses to Elevated Temperature and High Salinity in Arabidopsis thaliana

(2010) Hideyuki Matsuura et al.   PLANT AND CELL PHYSIOLOGY

Epigenetic Regulation of Repetitive Elements Is Attenuated by Prolonged Heat Stress inArabidopsis

(2010) Ales Pecinka et al.   PLANT CELL

Differential expression analysis for sequence count data

(2010) Simon Anders et al.   GENOME BIOLOGY

H2A.Z-Containing Nucleosomes Mediate the Thermosensory Response in Arabidopsis

(2009) S. Vinod Kumar et al.   CELL

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

(2009) Da Wei Huang et al.   Nature Protocols

Profiling translatomes of discrete cell populations resolves altered cellular priorities during hypoxia in Arabidopsis

(2009) A. Mustroph et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome-Wide Analysis in Vivo of Translation with Nucleotide Resolution Using Ribosome Profiling

(2009) N. T. Ingolia et al.   SCIENCE

Mapping and quantifying mammalian transcriptomes by RNA-Seq

(2008) Ali Mortazavi et al.   NATURE METHODS

RNA-Seq: a revolutionary tool for transcriptomics

(2008) Zhong Wang et al.   NATURE REVIEWS GENETICS

Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists

(2008) Da Wei Huang et al.   NUCLEIC ACIDS RESEARCH

Early events in signalling high-temperature stress in tobacco BY2 cells involve alterations in membrane fluidity and enhanced hydrogen peroxide production

(2008) HELGA KÖNIGSHOFER et al.   PLANT CELL AND ENVIRONMENT

Coupling and coordination in gene expression processes: a systems biology view

(2007) Suzanne Komili et al.   NATURE REVIEWS GENETICS