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TranscriptomicsGene expression arrays of cardiomyocyte ribosome-associated RNAs during zebrafish heart regeneration
A transgenic line cmlc2:TRAP was made to express EGFP-fused ribosomal protein L10a (EGFP-L10a) in zebrafish cardiomyocytes. Then ribosome-associated RNAs were immuoprecipitated from uninjured and injured adult cmlc2:TRAP fish to determine the differential expression changes during zebrafish heart re...
ORGANISM(S): Danio rerio 
2013-08-01 | E-GEOD-48914 | biostudies-arrayexpress
TranscriptomicsZea mays Transcriptome or Gene expression
We report the generation of RNA-seq and ribosome profiling data on 14-day maize seedling before and after drought stress treatment. We performed RNA-seq and ribosome profiling on both well-watered (WW) and drought-stressed (DS) maize seedlings. Both data types had two biological replicates. Note: Sa...
ORGANISM(S): Zea mays 
2015-06-01 | E-MTAB-4198 | biostudies-arrayexpress
ProteomicsThe effect of interferons on presentation of defective ribosome products as HLA peptides
The class I major histocompatibility complex (MHC) bound peptides, produced from immature proteins that are degraded rapidly are called defective ribosome products (DRiPs). Such DRiPs are possibly involved with early alerting of the immune system about impeding infections, thus bringing about faster...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2024-10-25 | MSV000096209 | MassIVE
GenomicsThe dynamic rRNA ribomethylome drives stemness in acute myeloid leukemia [ribosome profiling]
The dynamic rRNA ribomethylome drives stemness in acute myeloid leukemia [ribosome profiling]
PRJNA769267 | ENA
ProteomicsA new family of ribosome hibernation factors in ArchaeaA new family of ribosome hibernation factors in Archaea
Ribosome hibernation preserves translation machinery during stress, yet its mechanisms in Archaea remain poorly defined. Here, we identify HibA, a previously unrecognized family of hibernation factors widespread in Archaea. HibA consists of a bacterial-like HPF/RaiA domain fused to a Cystathionine B...
ORGANISM(S): Pyrococcus abyssi GE5 
2026-03-24 | PXD073243 | Pride
Archaea Ribosome Hibernation 
UnknownStructural insights into the binding of bS1 to the ribosome.
Not available
S-EPMC10123108 | biostudies-literature
ProteomicsChemical damage to mRNA triggers ribosome-based quality control in the cell
Maintaining the integrity of nucleic acids is an essential feature of all organisms. Unwanted modification of DNA, if left unrepaired, is deleterious to cellular homeostasis and could have far-reaching consequences that include genomic instability and accumulation of mutations. Similarly, accumulati...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2019-11-07 | PXD013834 | Pride
Ubiquitylation Quality control Ribosome collision 
ProteomicsSecond messenger control of mRNA translation by dynamic ribosome modification
Pseudomonas species employ complex, dynamic signalling networks to fine-tune responses to changing environments, with regulation taking place at the transcriptional, post-transcriptional and post-translational levels. Control of mRNA translation and hence protein abundance is a crucial element of th...
ORGANISM(S): Pseudomonas fluorescens (strain SBW25) 
2020-06-30 | PXD017233 | Pride
Signalling Pseudomonas Ribosomal proteins Cyclic-di-gmp Itraq proteome 
TranscriptomicsDefining the specificity of cotranslationally acting chaperones by systematic analysis of mRNAs associated with ribosome-nascent chain complexes.
This SuperSeries is composed of the SubSeries listed below. Refer to individual Series
ORGANISM(S): Saccharomyces cerevisiae 
2013-04-05 | E-GEOD-45798 | biostudies-arrayexpress
ProteomicsA comprehensive landscape of 60S ribosome biogenesis factors
We used quantitative proteomics and crosslinking mass spectrometry (XL-MS) to analyse a comprehensive set of purified pre-60S ribosomal particles, obtaining a detailed timeline of RBF engagement during 60S ribosome biogenesis as well as particle-specific crosslink networks for all analysed particles...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2021-12-07 | PXD021831 | Pride
Ribosome assembly factors (afs) Ribosome biogenesis factors (rbfs) Mi-filter False discovery rate (fdr) Crosslinking coupled to mass spectrometry (xl-ms) Ribosome biogenesis 
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