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TranscriptomicsDistinct stages of the translation elongation cycle revealed by sequencing ribosome-protected mRNA fragments
During translation elongation, the ribosome ratchets along its mRNA template, incorporating each new amino acid and translocating from one codon to the next. The elongation cycle requires dramatic structural rearrangements of the ribosome. We show here that deep sequencing of ribosome-protected mRNA...
ORGANISM(S): Saccharomyces cerevisiae 
2014-06-10 | E-GEOD-58321 | biostudies-arrayexpress
MetabolomicsP53 dependent hypusination of eIF5A affect mitochondrial translation and senescence immune surveillance
Cellular senescence is characterized by a permanent growth arrest and is associated with tissue aging and cancer. Senescent cells secrete a number of different cytokines referred to as the senescence-associated secretory phenotype (SASP), which impacts the surrounding tissue and immune response. Her...
2024-08-14 | MTBLS10690 | MetaboLights
TranscriptomicsActivation of GCN2 by Ribosome Stalling Links Translation Elongation with Translation Initiation
This SuperSeries is composed of the SubSeries listed below. Refer to individual Series
ORGANISM(S): Mus musculus 
2016-06-15 | E-GEOD-79930 | biostudies-arrayexpress
TranscriptomicsExamination of gene expression in cerebellum and hippocampus for mouse C57BL/6J WT and nmf205-/-
Ribosome stalling during translation has recently been shown to cause neurodegeneration, yet the signaling pathways triggered by stalled elongation complexes are unknown. To investigate these pathways we analyzed the brain of B6J-nmf205-/- mice in which neuronal elongation complexes are stall...
ORGANISM(S): Mus musculus 
2016-06-15 | E-GEOD-79926 | biostudies-arrayexpress
TranscriptomicsExamination of gene expression in cerebellum of mouse strains B6J, B6J-nmf205-/-, B6J-Gcn2-/- and B6J-nmf205-/-;Gcn2-/-.
Ribosome stalling during translation has recently been shown to cause neurodegeneration, yet the signaling pathways triggered by stalled elongation complexes are unknown. To investigate these pathways we analyzed the brain of B6J-nmf205-/- mice in which neuronal elongation complexes are stalled at...
ORGANISM(S): Mus musculus 
2016-06-15 | E-GEOD-79929 | biostudies-arrayexpress
ModelsFirczuk2013 - Eukaryotic mRNA translation machinery
Firczuk2013 - Eukaryotic mRNA translation machinery This is a model of Saccharomyces cerevisiae mRNA translation which includes the initiation, elongation and termination phases. The model is for 20 condon mRNAs. The building of a multi-factor complex in initiati...
2024-09-02 | BIOMD0000000457 | BioModels
TranscriptomicsGenome-Wide Analysis In Vivo of Translation with Nucleotide Resolution Using Ribosome Profiling
Techniques for systematically monitoring protein translation have lagged far behind methods for measuring mRNA levels. Here we present a ribosome profiling strategy, based on deep sequencing of ribosome protected mRNA fragments, that enables genome-wide investigation of translation with sub-codon re...
ORGANISM(S): Saccharomyces cerevisiae 
2009-02-12 | E-GEOD-13750 | biostudies-arrayexpress
GenomicsTranslation elongation inhibitors stabilize select transcripts
Translation elongation inhibitors stabilize select transcripts
PRJNA1103765 | ENA
ModelsHu2020 - E. coli translation model
This translation model consists of 274 biochemical reactions, including 119 reactions with non-linear kinetics. This mechanistic model accounts for the concentrations of mRNA, the ribosome, the different charged tRNAs, and the elongation factors Ts (EF-Ts) and Tu (EF-Tu). We fully parameterized the ...
2020-07-01 | MODEL2006210001 | BioModels
TranscriptomicsWidespread regulation of translation by elongation pausing in heat shock
RNA-seq and ribosome footprinting libraries of mouse 3T3 and human 293T cellsrelated to Shalgi et al. 2013 36bases paired-end RNA-seq, and ribosome footprinting libraries for: 3T3 cells - Control, 8 hours of mild heat shock (42) and 2 hours of severe heat shock (44) - in replicates, as well as 3T3 ...
ORGANISM(S): Mus musculus 
2013-01-03 | E-GEOD-32060 | biostudies-arrayexpress
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