4.7 Article

Codon bias confers stability to human mRNAs

Related references

Note: Only part of the references are listed.
Article Biochemistry & Molecular Biology

Cycloheximide can distort measurements of mRNA levels and translation efficiency

Daniel A. Santos et al.

NUCLEIC ACIDS RESEARCH (2019)

Article Multidisciplinary Sciences

Cap-specific terminal N6-methylation of RNA by an RNA polymerase II-associated methyltransferase

Shinichiro Akichika et al.

SCIENCE (2019)

Review Cell Biology

Functional 5′ UTR mRNA structures in eukaryotic translation regulation and how to find them

Kathrin Leppek et al.

NATURE REVIEWS MOLECULAR CELL BIOLOGY (2018)

Article Biochemistry & Molecular Biology

Ensembl 2018

Daniel R. Zerbino et al.

NUCLEIC ACIDS RESEARCH (2018)

Article Biochemical Research Methods

SARNAclust: Semi-automatic detection of RNA protein binding motifs from immunoprecipitation data

Ivan Dotu et al.

PLOS COMPUTATIONAL BIOLOGY (2018)

Article Biology

Codon choice directs constitutive mRNA levels in trypanosomes

Janaina de Freitas Nascimento et al.

ELIFE (2018)

Article Biochemistry & Molecular Biology

Codon usage regulates human KRAS expression at both transcriptional and translational levels

Jingjing Fu et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2018)

Article Biochemical Research Methods

Transcriptome-wide measurement of translation by ribosome profiling

Nicholas J. McGlincy et al.

METHODS (2017)

Article Multidisciplinary Sciences

Effects of cycloheximide on the interpretation of ribosome profiling experiments in Schizosaccharomyces pombe

Caia D. S. Duncan et al.

SCIENTIFIC REPORTS (2017)

Article Biochemistry & Molecular Biology

NF-κB c-Rel Is Crucial for the Regulatory T Cell Immune Checkpoint in Cancer

Yenkel Grinberg-Bleyer et al.

Article Biotechnology & Applied Microbiology

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

Yuriko Harigaya et al.

BMC GENOMICS (2016)

Article Biochemistry & Molecular Biology

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

Aditya Radhakrishnan et al.

Article Biochemistry & Molecular Biology

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

Ariel A. Bazzini et al.

EMBO JOURNAL (2016)

Article Biochemistry & Molecular Biology

Codon Usage and 30 UTR Length Determine Maternal mRNA Stability in Zebrafish

Yuichiro Mishima et al.

MOLECULAR CELL (2016)

Article Multidisciplinary Sciences

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

Gregory Boel et al.

NATURE (2016)

Article Biochemistry & Molecular Biology

Role of mRNA structure in the control of protein folding

Guilhem Faure et al.

NUCLEIC ACIDS RESEARCH (2016)

Article Multidisciplinary Sciences

Codon usage is an important determinant of gene expression levels largely through its effects on transcription

Zhipeng Zhou et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2016)

Article Multidisciplinary Sciences

Differences in codon bias and GC content contribute to the balanced expression of TLR7 and TLR9

Zachary R. Newman et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2016)

Editorial Material Multidisciplinary Sciences

Seeing translation Monitoring individual messenger RNAs as they make protein reveals the tricks of translation

Shintaro Iwasaki et al.

SCIENCE (2016)

Article Genetics & Heredity

Multiple Transcript Properties Related to Translation Affect mRNA Degradation Rates in Saccharomyces cerevisiae

Benjamin Neymotin et al.

G3-GENES GENOMES GENETICS (2016)

Article Biochemistry & Molecular Biology

Codon Optimality Is a Major Determinant of mRNA Stability

Vladimir Presnyak et al.

Article Biochemistry & Molecular Biology

Codon Usage Influences the Local Rate of Translation Elongation to Regulate Co-translational Protein Folding

Chien-Hung Yu et al.

MOLECULAR CELL (2015)

Article Biochemical Research Methods

Efficient and quantitative high-throughput tRNA sequencing

Guanqun Zheng et al.

NATURE METHODS (2015)

Article Multidisciplinary Sciences

RC3H1 post-transcriptionally regulates A20 mRNA and modulates the activity of the IKK/NF-κB pathway

Yasuhiro Murakawa et al.

NATURE COMMUNICATIONS (2015)

Article Biochemistry & Molecular Biology

A Dual Program for Translation Regulation in Cellular Proliferation and Differentiation

Hila Gingold et al.

Article Biochemistry & Molecular Biology

Accounting for biases in riboprofiling data indicates a major role for proline in stalling translation

Carlo G. Artieri et al.

GENOME RESEARCH (2014)

Article Biochemistry & Molecular Biology

Causal signals between codon bias, mRNA structure, and the efficiency of translation and elongation

Cristina Pop et al.

MOLECULAR SYSTEMS BIOLOGY (2014)

Article Biochemistry & Molecular Biology

Translation inhibitors cause abnormalities in ribosome profiling experiments

Maxim V. Gerashchenko et al.

NUCLEIC ACIDS RESEARCH (2014)

Article Biochemistry & Molecular Biology

ZFP36L1 and ZFP36L2 control LDLR mRNA stability via the ERK-RSK pathway

Shungo Adachi et al.

NUCLEIC ACIDS RESEARCH (2014)

Article Biochemistry & Molecular Biology

The effect of tRNA levels on decoding times of mRNA codons

Alexandra Dana et al.

NUCLEIC ACIDS RESEARCH (2014)

Article Multidisciplinary Sciences

Quantifying the Effect of Ribosomal Density on mRNA Stability

Shlomit Edri et al.

PLOS ONE (2014)

Article Biochemistry & Molecular Biology

Rare Codons Regulate KRas Oncogenesis

Benjamin L. Lampson et al.

CURRENT BIOLOGY (2013)

Article Biochemistry & Molecular Biology

Evolutionary conservation of codon optimality reveals hidden signatures of cotranslational folding

Sebastian Pechmann et al.

NATURE STRUCTURAL & MOLECULAR BIOLOGY (2013)

Article Biochemistry & Molecular Biology

Positively Charged Residues Are the Major Determinants of Ribosomal Velocity

Catherine A. Charneski et al.

PLOS BIOLOGY (2013)

Review Genetics & Heredity

Insights into the regulation of protein abundance from proteomic and transcriptomic analyses

Christine Vogel et al.

NATURE REVIEWS GENETICS (2012)

Article Biochemistry & Molecular Biology

NF45 dimerizes with NF90, Zfr and SPNR via a conserved domain that has a nucleotidyltransferase fold

Urszula M. Wolkowicz et al.

NUCLEIC ACIDS RESEARCH (2012)

Article Biochemistry & Molecular Biology

The DEAD-Box Protein Dhh1 Promotes Decapping by Slowing Ribosome Movement

Thomas Sweet et al.

PLOS BIOLOGY (2012)

Article Biotechnology & Applied Microbiology

GC content around splice sites affects splicing through pre-mRNA secondary structures

Jing Zhang et al.

BMC GENOMICS (2011)

Article Biochemistry & Molecular Biology

RNA Homeostasis Governed by Cell Type-Specific and Branched Feedback Loops Acting on NMD

Lulu Huang et al.

MOLECULAR CELL (2011)

Article Biotechnology & Applied Microbiology

Composite effects of gene determinants on the translation speed and density of ribosomes

Tamir Tuller et al.

GENOME BIOLOGY (2011)

Article Biochemistry & Molecular Biology

NF45 functions as an IRES trans-acting factor that is required for translation of cIAP1 during the unfolded protein response

T. E. Graber et al.

CELL DEATH AND DIFFERENTIATION (2010)

Article Biochemistry & Molecular Biology

NF90 selectively represses the translation of target mRNAs bearing an AU-rich signature motif

Yuki Kuwano et al.

NUCLEIC ACIDS RESEARCH (2010)

Article Biochemical Research Methods

Translationally optimal codons associate with aggregation-prone sites in proteins

Yaelim Lee et al.

PROTEOMICS (2010)

Review Cell Biology

The role of AUF1 in regulated mRNA decay

Frances M. Gratacos et al.

WILEY INTERDISCIPLINARY REVIEWS-RNA (2010)

Article Biotechnology & Applied Microbiology

Differential expression analysis for sequence count data

Simon Anders et al.

GENOME BIOLOGY (2010)

Article Biochemistry & Molecular Biology

Translationally Optimal Codons Associate with Structurally Sensitive Sites in Proteins

Tong Zhou et al.

MOLECULAR BIOLOGY AND EVOLUTION (2009)

Article Multidisciplinary Sciences

Hypusine-containing protein eIF5A promotes translation elongation

Preeti Saini et al.

NATURE (2009)

Article Biochemistry & Molecular Biology

MEME SUITE: tools for motif discovery and searching

Timothy L. Bailey et al.

NUCLEIC ACIDS RESEARCH (2009)

Article Multidisciplinary Sciences

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

Nicholas T. Ingolia et al.

SCIENCE (2009)

Article Biology

CAIcal:: A combined set of tools to assess codon usage adaptation

Pere Puigbo et al.

BIOLOGY DIRECT (2008)

Article Biochemistry & Molecular Biology

Mistranslation-induced protein misfolding as a dominant constraint on coding-sequence evolution

D. Allan Drummond et al.

Article Biochemistry & Molecular Biology

Nuclear factor 45 (NF45) is a regulatory subunit of complexes with NF90/110 involved in mitotic control

Deyu Guan et al.

MOLECULAR AND CELLULAR BIOLOGY (2008)

Article Multidisciplinary Sciences

NFAR-1 and-2 modulate translation and are required for efficient host defense

Ingrid Pfeifer et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2008)

Article Biochemical Research Methods

Determinants of protein abundance and translation efficiency in S-cerevisiae

Tamir Tuller et al.

PLOS COMPUTATIONAL BIOLOGY (2007)

Article Biochemistry & Molecular Biology

High guanine and cytosine content increases mRNA levels in mammalian cells

Grzegorz Kudla et al.

PLOS BIOLOGY (2006)

Article Biochemistry & Molecular Biology

The UCSC Table Browser data retrieval tool

D Karolchik et al.

NUCLEIC ACIDS RESEARCH (2004)

Article Biochemistry & Molecular Biology

Solving the riddle of codon usage preferences: a test for translational selection

M dos Reis et al.

NUCLEIC ACIDS RESEARCH (2004)

Article Multidisciplinary Sciences

Comprehensive proteomic analysis of the human spliceosome

ZL Zhou et al.

NATURE (2002)

Article Biochemistry & Molecular Biology

mRNA decapping in yeast requires dissociation of the cap binding protein, eukaryotic translation initiation factor 4E

DC Schwartz et al.

MOLECULAR AND CELLULAR BIOLOGY (2000)

Article Biochemistry & Molecular Biology

Codon usage tabulated from international DNA sequence databases: status for the year 2000

Y Nakamura et al.

NUCLEIC ACIDS RESEARCH (2000)