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TranscriptomicsThe genetic framework of the Drosophila piRNA pathway
The animal piRNA pathway is a small RNA silencing system that acts in gonads and protects the genome against the deleterious influence of transposons. A major bottleneck in the field is the lack of comprehensive knowledge of the factors and molecular processes that constitute this pathway. We conduc...
ORGANISM(S): Drosophila melanogaster 
2013-05-10 | E-GEOD-45894 | biostudies-arrayexpress
ProteomicsCodon-specific ribosome stalling reshapes translational dynamics during branched-chain amino acid starvation
This study investigates the immediate effects of single, double, and triple branched-chain amino acid (BCAA) deprivation on translational dynamics in NIH3T3 cells. Using a multi-omics approach combining RNA-seq, ribosome profiling (Ribo-seq), quantitative proteomics, and tRNA charging assays, we sys...
ORGANISM(S): Mus musculus (Mouse) 
2025-09-13 | PXD067949 | Pride
Proteomics Elongation bottleneck Nutrient stress response Mass spectrometry Nih3t3 cells Ribosome profiling Amino acid starvation Translation regulation Trna charging Codon-specific stalling 
UnknownMaintenance of translational elongation rate underlies the survival of Escherichia coli during oxidative stress.
Not available
S-EPMC6698664 | biostudies-literature
OtherCodon-specific ribosome stalling reshapes translational dynamics during branched-chain amino acid starvation
Background Cells regulate protein synthesis in response to fluctuating nutrient availability through mechanisms that affect both translation initiation and elongation. Branched-chain amino acids, leucine, isoleucine, and valine, are essential nutrients. However, how their depletion affects translati...
ORGANISM(S): Mus musculus 
2025-09-02 | GSE291653 | GEO
TranscriptomicsCodon-specific ribosome stalling reshapes translational dynamics during branched-chain amino acid starvation
Background: Cells regulate protein synthesis in response to fluctuating nutrient availability through mechanisms that affect both translation initiation and elongation. Branched-chain amino acids, leucine, isoleucine, and valine, are essential nutrients. However, how their depletion affects translat...
ORGANISM(S): Mus musculus 
2025-09-02 | GSE291652 | GEO
UnknownClicked H-Shaped Arylopeptoids.
Not available
S-EPMC11821099 | biostudies-literature
TranscriptomicsMetabolic engineering of oleaginous yeast in lipogenic phase enhances production of nervonic acid
Insufficient biosynthesis efficiency can be a major obstacle to engineer oleaginous yeasts to overproduce very long-chain fatty acids (VLCFAs) during the lipogenic phase. Taking nervonic acid (NA, C24:1) as an example, we overcame the bottleneck to overproduce NA in engineered Rhodosporidium toruloi...
ORGANISM(S): Rhodotorula toruloides 
2023-09-14 | GSE241709 | GEO
TranscriptomicsThe genetic framework of the Drosophila piRNA pathway
The animal piRNA pathway is a small RNA silencing system that acts in gonads and protects the genome against the deleterious influence of transposons. A major bottleneck in the field is the lack of comprehensive knowledge of the factors and molecular processes that constitute this pathway. We conduc...
ORGANISM(S): Drosophila melanogaster 
2013-05-10 | GSE45894 | GEO
UnknownRiboformer: a deep learning framework for predicting context-dependent translation dynamics.
Not available
S-EPMC10915169 | biostudies-literature
UnknownCodon-specific ribosome stalling reshapes translational dynamics during branched-chain amino acid starvation.
Not available
S-EPMC12476630 | biostudies-literature
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