Genome-wide analysis of mRNA translation profiles in Saccharomyces cerevisiae

By Y. Arava, Yulei Wang, John D. Storey, C. Liu, Patrick O. Brown, Daniel Herschlag. Proceedings of the National Academy of Sciences of the United States of America, 2003

721 citations recorded by the source corpus.

Subfields: Molecular Biology

View Paper: https://www.semanticscholar.org/paper/91ecca3896416ce6e15382e2e9a090f290f0edc5

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Citations in the corpus

The scanning mechanism of eukaryotic translation initiation. (2014, background): “association and PABP–eIF4G interaction afforded by shorter mRNAs may help explain the inverse correlation between the length of coding sequences and translational efficiency (143).”
Noise Minimization in Eukaryotic Gene Expression (2004, methodology): “Translation rates per mRNA in rich glucose medium were calculated from ribosome occupancy data by Arava et al. (2003); speciﬁcally, ribosome density per mRNA present in the polysome fraction was multiplied by the fraction of each mRNA that was found in the polysome fraction to estimate the average…”
Ribosome Profiling of Mouse Embryonic Stem Cells Reveals the Complexity of Mammalian Proteomes (2011, background): “The lack of packed ribosomes at pause sites suggests that ribosome density is typically too low to cause frequent encounters between upstream elongating ribosomes and a transiently stalled downstream ribosome (Arava et al., 2003).”
Evolutionary and Physiological Importance of Hub Proteins (2006, positive): “CAI values were calculated as described [27] using 30 most highly expressed yeast genes [42].”
Single-RNA counting reveals alternative modes of gene expression in yeast (2008, background): “This number also fits measurements suggesting that about 85% of the 200,000 yeast ribosomes are associated with mRNAs at an average ribosome density of 1 ribosome per 154 n”
A Unified Model for the Function of YTHDF Proteins in Regulating m6A-Modified mRNA (2020, background): “The ability of PABPC1 to enhance mRNA translation is evident based on its enrichment in the polysome fractions corresponding to highly translated mRNAs (Arava et al., 2003).”
An evolutionarily conserved mechanism for controlling the efficiency of protein translation. (2010, background): “The averaged ribosome density on transcripts (number of ribosomes divided by the length of the transcript) had been previously measured for most of the genes in the S. cerevisiae genome (Arava et al., 2003).”
Diverse RNA-Binding Proteins Interact with Functionally Related Sets of RNAs, Suggesting an Extensive Regulatory System (2008, neutral): “significantly correlated with either ribosome occupancy [62],”
Sequence signatures and mRNA concentration can explain two-thirds of protein abundance variation in a human cell line (2010, background): “Other evidence suggests a decrease of translation initiation in long sequences (Arava et al, 2003, 2005; Lackner and Bahler, 2008).”
Absolute protein expression profiling estimates the relative contributions of transcriptional and translational regulation (2007, result): “However, it is consistent with the findings that ribosome density on mRNAs decreases with increasing gene length”
Correlation of mRNA and protein in complex biological samples (2009, neutral): “Although microarrays and Affymetrix chips are still the most used tools to measure mRNA levels [1,2], they are progressively being replaced by deep sequencing technologies.”