Cis -regulatory elements explain most of the mRNA stability variation across genes in yeast

High-resolution profiling of NMD targets in yeast reveals translational fidelity as a basis for substrate selection

(2017) Alper Celik et al.   RNA

High-throughput discovery of post-transcriptional cis-regulatory elements

(2016) Erin M. Wissink et al.   BMC GENOMICS

Analysis of the association between codon optimality and mRNA stability in Schizosaccharomyces pombe

(2016) Yuriko Harigaya et al.   BMC GENOMICS

The DEAD-Box Protein Dhh1p Couples mRNA Decay and Translation by Monitoring Codon Optimality

(2016) Aditya Radhakrishnan et al.   CELL

Codon identity regulates mRNA stability and translation efficiency during the maternal‐to‐zygotic transition

(2016) Ariel A Bazzini et al.   EMBO JOURNAL

Connections Underlying Translation and mRNA Stability

(2016) Aditya Radhakrishnan et al.   JOURNAL OF MOLECULAR BIOLOGY

Codon Usage and 3′ UTR Length Determine Maternal mRNA Stability in Zebrafish

(2016) Yuichiro Mishima et al.   MOLECULAR CELL

Pervasive isoform‐specific translational regulation via alternative transcription start sites in mammals

(2016) Xi Wang et al.   Molecular Systems Biology

Determinants of RNA metabolism in the Schizosaccharomyces pombe genome

(2016) P. Eser et al.   Molecular Systems Biology

Codon influence on protein expression in E. coli correlates with mRNA levels

(2016) Grégory Boël et al.   NATURE

Predictive biophysical modeling and understanding of the dynamics of mRNA translation and its evolution

(2016) Hadas Zur et al.   NUCLEIC ACIDS RESEARCH

TT-seq maps the human transient transcriptome

(2016) Björn Schwalb et al.   SCIENCE

Codon Optimality Is a Major Determinant of mRNA Stability

(2015) Vladimir Presnyak et al.   CELL

Systematic Dissection of the Sequence Determinants of Gene 3’ End Mediated Expression Control

(2015) Ophir Shalem et al.   PLoS Genetics

Global Analysis of mRNA Isoform Half-Lives Reveals Stabilizing and Destabilizing Elements in Yeast

(2014) Joseph V. Geisberg et al.   CELL

High-Resolution Sequencing and Modeling Identifies Distinct Dynamic RNA Regulatory Strategies

(2014) Michal Rabani et al.   CELL

Modelling the Efficiency of Codon–tRNA Interactions Based on Codon Usage Bias

(2014) Renana Sabi et al.   DNA RESEARCH

Alternative polyadenylation diversifies post-transcriptional regulation by selective RNA-protein interactions

(2014) I. Gupta et al.   Molecular Systems Biology

Contributions of transcription and mRNA decay to gene expression dynamics of fission yeast in response to oxidative stress

(2014) Samuel Marguerat et al.   RNA Biology

Determination of in vivo RNA kinetics using RATE-seq

(2014) Benjamin Neymotin et al.   RNA

Systematic Analysis of the Role of RNA-Binding Proteins in the Regulation of RNA Stability

(2014) Ayesha Hasan et al.   PLoS Genetics

Interrelations between translation and general mRNA degradation in yeast

(2014) Susanne Huch et al.   Wiley Interdisciplinary Reviews-RNA

Mojo Hand, a TALEN design tool for genome editing applications

(2013) Kevin L Neff et al.   BMC BIOINFORMATICS

Global Analysis of Eukaryotic mRNA Degradation Reveals Xrn1-Dependent Buffering of Transcript Levels

(2013) Mai Sun et al.   MOLECULAR CELL

Extensive transcriptional heterogeneity revealed by isoform profiling

(2013) Vicent Pelechano et al.   NATURE

Effects of the Yeast RNA-Binding Protein Whi3 on the Half-Life and Abundance of CLN3 mRNA and Other Targets

(2013) Ying Cai et al.   PLoS One

Deciphering the rules by which 5'-UTR sequences affect protein expression in yeast

(2013) S. Dvir et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The intimate relationships of mRNA decay and translation

(2013) Bijoyita Roy et al.   TRENDS IN GENETICS

Genome-wide survey of interindividual differences of RNA stability in human lymphoblastoid cell lines

(2013) Jubao Duan et al.   Scientific Reports

Polygenic Modeling with Bayesian Sparse Linear Mixed Models

(2013) Xiang Zhou et al.   PLoS Genetics

RNA Degradation in Saccharomyces cerevisae

(2012) Roy Parker   GENETICS

ViennaRNA Package 2.0

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

Coupled pre-mRNA and mRNA dynamics unveil operational strategies underlying transcriptional responses to stimuli

(2011) A. Zeisel et al.   Molecular Systems Biology

Dynamic transcriptome analysis measures rates of mRNA synthesis and decay in yeast

(2011) C. Miller et al.   Molecular Systems Biology

Global quantification of mammalian gene expression control

(2011) Björn Schwanhäusser et al.   NATURE

Sequence signatures and mRNA concentration can explain two-thirds of protein abundance variation in a human cell line

(2010) Christine Vogel et al.   Molecular Systems Biology

Inherited Variation in Gene Expression

(2009) Daniel A. Skelly et al.   Annual Review of Genomics and Human Genetics

Whi3, a Developmental Regulator of Budding Yeast, Binds a Large Set of mRNAs Functionally Related to the Endoplasmic Reticulum

(2008) Neus Colomina et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Structural Basis of Dcp2 Recognition and Activation by Dcp1

(2008) Meipei She et al.   MOLECULAR CELL

Transient transcriptional responses to stress are generated by opposing effects of mRNA production and degradation

(2008) Ophir Shalem et al.   Molecular Systems Biology

Computational prediction of RNA structural motifs involved in posttranscriptional regulatory processes

(2008) M. Rabani et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Diverse RNA-Binding Proteins Interact with Functionally Related Sets of RNAs, Suggesting an Extensive Regulatory System

(2008) Daniel J Hogan et al.   PLOS BIOLOGY