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Transcriptomicsm6A in 5’ untranslated regions promotes cap-independent translation of mRNA
N6-methyladenosine (m6A) is a widespread internal RNA modification whose function is poorly understood. Here we report that m6A residues within the 5'UTR promote a novel form of cap-independent translation which is mediated through an interaction between m6A residues and the translation initiation f...
ORGANISM(S): Homo sapiens 
2015-10-26 | E-GEOD-73405 | biostudies-arrayexpress
ProteomicsSystemic remodeling of translation efficiencies on oxygen stimulus.
Protein concentrations evolve under greater evolutionary constraint than mRNA levels. In addition, translation efficiency of mRNA populations represents the chief determinant of basal protein concentrations. This raises a fundamental question as to how mRNA and protein levels are actively coordina...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2016-07-20 | MSV000079962 | MassIVE
TranscriptomicsImproved transcription and translation with L-leucine stimulation of mTORC1
Roberts syndrome (RBS) is a human developmental disorder caused by mutations in the cohesin acetyltransferase ESCO2. We previously reported that mTORC1 was inhibited and overall translation was reduced in RBS cells. Treatment of RBS cells with L-leucine partially rescued mTOR function and protein sy...
ORGANISM(S): Homo sapiens 
2016-01-15 | E-GEOD-64962 | biostudies-arrayexpress
TranscriptomicsOptimization of codon translation rates via tRNA modifications maintains proteome integrity
Proteins begin to fold as they emerge from translating ribosomes. The kinetics of ribosome transit along a given mRNA can influence nascent chain folding, but the extent to which individual codon translation rates impact proteome integrity remains unknown. Here, we show that slower decoding of discr...
ORGANISM(S): Caenorhabditis elegans 
2015-06-04 | E-GEOD-67387 | biostudies-arrayexpress
TranscriptomicsA unifying model for mTORC1-mediated regulation of mRNA translation
Ribsome profiling analysis of mRNA translation in mouse cells under conditions of mTOR activiation or inhibition. embryonic fibroblasts from 4EBP1/2 p53 mutants treated with Torin1
ORGANISM(S): Mus musculus 
2012-05-02 | E-GEOD-36892 | biostudies-arrayexpress
ProteomicsA mini-hairpin shaped nascent peptide blocks translation termination by a distinct mechanism
The mini-hairpin shaped nascent peptide that blocks translation termination was found by comprehensive proteomics approach for small ORFs overexpression.
ORGANISM(S): Escherichia Coli 
2025-02-17 | PXD052430 | JPOST Repository
TranscriptomicsExpression data from Ribonuclease Inhibitor (RI/Rnh1) deficient Human K562 cells
Summary: Ribonuclease Inhibitor (RI also known as Rnh1) is a 50 kDa, ubiquitously expressed leucine-rich repeat (LRR) protein. It is localized in cytosol and binds to pancreatic-type ribonucleases and inhibit their function. However, the entire biological role for Rnh1 is unknown. We generated RNH1...
ORGANISM(S): Homo sapiens 
2017-03-05 | E-MTAB-5162 | biostudies-arrayexpress
TranscriptomicsThe Small Molecule ISRIB Reverses the Effects of eIF2α Phosphorylation on Translation and Stress Granule Assembly
We recently identified ISRIB as a potent inhibitor of the integrated stress response (ISR). ISRIB renders cells resistant to the effects of eIF2α phosphorylation and enhances long-term memory in rodents (10.7554/eLife.00498). Here we show by genome-wide in vivo ribosome profiling that translation o...
ORGANISM(S): Homo sapiens 
2015-02-27 | E-GEOD-65778 | biostudies-arrayexpress
TranscriptomicsTemporally defined neocortical translation and polysome assembly is determined by the RNA-binding protein, Hu antigen R
Precise spatiotemporal control of mRNA translation machinery is essential to proper development of highly complex systems like the neocortex. Here, we show that an RNA-binding protein, Hu antigen R (HuR), regulates both neocorticogenesis and specificity of neocortical translation machinery in a deve...
ORGANISM(S): Mus musculus 
2014-08-25 | E-GEOD-50809 | biostudies-arrayexpress
TranscriptomicsRibosome profiling with translation inhibitors reveals pervasive translation in murine ES cells
Ribosome profiling with translation inhibitors reveals pervasive translation in murine ES cells. Ribosome profiling or stranded RNAseq (ribominus) with murine embryonic stem cells treated with either DMD-pateamineA, Puromycin, Harringtonine or vehicle (no drug control). Two replicates per condition.
ORGANISM(S): Mus musculus 
2016-01-12 | E-GEOD-67741 | biostudies-arrayexpress
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