Predicting dynamic cellular protein–RNA interactions by deep learning using in vivo RNA structures
Interactions with RNA-binding proteins (RBPs) are integral to RNA function and cellular
regulation, and dynamically reflect specific cellular conditions. However, presently available …
regulation, and dynamically reflect specific cellular conditions. However, presently available …
The fission yeast cell integrity pathway: a functional hub for cell survival upon stress and beyond
The survival of eukaryotic organisms during environmental changes is largely dependent on
the adaptive responses elicited by signal transduction cascades, including those regulated …
the adaptive responses elicited by signal transduction cascades, including those regulated …
The role of RNA binding proteins in hepatocellular carcinoma
Hepatocellular carcinoma (HCC) is one of the leading causes of overall cancer deaths
worldwide with limited therapeutic options. Due to the heterogeneity of HCC pathogenesis …
worldwide with limited therapeutic options. Due to the heterogeneity of HCC pathogenesis …
Regulation of alternative polyadenylation by the C2H2-zinc-finger protein Sp1
Alternative polyadenylation (APA) enhances gene regulatory potential by increasing the
diversity of mRNA transcripts. 3′ UTR shortening through APA correlates with enhanced …
diversity of mRNA transcripts. 3′ UTR shortening through APA correlates with enhanced …
In heart failure reactivation of RNA-binding proteins is associated with the expression of 1,523 fetal-specific isoforms
Reactivation of fetal-specific genes and isoforms occurs during heart failure. However, the
underlying molecular mechanisms and the extent to which the fetal program switch occurs …
underlying molecular mechanisms and the extent to which the fetal program switch occurs …
Cis-regulatory elements explain most of the mRNA stability variation across genes in yeast
The stability of mRNA is one of the major determinants of gene expression. Although a
wealth of sequence elements regulating mRNA stability has been described, their …
wealth of sequence elements regulating mRNA stability has been described, their …
Ribosome profiling reveals ribosome stalling on tryptophan codons and ribosome queuing upon oxidative stress in fission yeast
Translational control is essential in response to stress. We investigated the translational
programmes launched by the fission yeast Schizosaccharomyces pombe upon five …
programmes launched by the fission yeast Schizosaccharomyces pombe upon five …
Analysis of the association between codon optimality and mRNA stability in Schizosaccharomyces pombe
Y Harigaya, R Parker - BMC genomics, 2016 - Springer
Background Recent experiments have shown that codon optimality is a major determinant of
mRNA stability in Saccharomyces cerevisiae and that this phenomenon may be conserved …
mRNA stability in Saccharomyces cerevisiae and that this phenomenon may be conserved …
Decoupling the impact of microRNAs on translational repression versus RNA degradation in embryonic stem cells
JW Freimer, TJ Hu, R Blelloch - elife, 2018 - elifesciences.org
Translation and mRNA degradation are intimately connected, yet the mechanisms that link
them are not fully understood. Here, we studied these mechanisms in embryonic stem cells …
them are not fully understood. Here, we studied these mechanisms in embryonic stem cells …
Long noncoding RNA repertoire and targeting by nuclear exosome, cytoplasmic exonuclease, and RNAi in fission yeast
SR Atkinson, S Marguerat, DA Bitton… - Rna, 2018 - rnajournal.cshlp.org
Long noncoding RNAs (lncRNAs), which are longer than 200 nucleotides but often unstable,
contribute a substantial and diverse portion to pervasive noncoding transcriptomes. Most …
contribute a substantial and diverse portion to pervasive noncoding transcriptomes. Most …