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GenomicsSch9 regulates ribosome biogenesis via Stb3, Dot6 and Tod6 and the histone deacetylase complex RPD3L (ChIP-Seq data)
TORC1 is a structurally and functionally conserved multiprotein complex that regulates many aspects of eukaryote growth including the synthesis and assembly of ribosomes. The protein kinase activity of this complex is responsive to environmental cues and is potently inhibited by the natural product ...
ORGANISM(S): Saccharomyces cerevisiae 
2011-07-01 | E-GEOD-29124 | biostudies-arrayexpress
TranscriptomicsSnapshots of pre-rRNA structural flexibility reveal eukaryotic 40S assembly dynamics at nucleotide resolution
Ribosome assembly in eukaryotes involves the activity of hundreds of assembly factors that direct the hierarchical assembly of ribosomal proteins and numerous ribosomal RNA folding steps. However, detailed insights into the function of assembly factors and ribosomal RNA folding events are lacking. T...
ORGANISM(S): Saccharomyces cerevisiae 
2014-11-14 | E-GEOD-52878 | biostudies-arrayexpress
TranscriptomicsSch9 regulates ribosome biogenesis via Stb3, Dot6 and Tod6 and the histone deacetylase complex RPD3L (mRNA-Seq data)
TORC1 is a structurally and functionally conserved multiprotein complex that regulates many aspects of eukaryote growth including the synthesis and assembly of ribosomes. The protein kinase activity of this complex is responsive to environmental cues and is potently inhibited by the natural product ...
ORGANISM(S): Saccharomyces cerevisiae 
2011-07-01 | E-GEOD-29122 | biostudies-arrayexpress
MetabolomicsIdentification of the modifications in artificial E. coli rRNAs
Ribosome biogenesis is pivotal in the self-replication of life. In Escherichia coli, three ribosomal RNAs and 54 ribosomal proteins are synthesized and subjected to cooperative hierarchical assembly facilitated by numerous accessory factors. Realizing ribosome biogenesis in vitro is a critical miles...
2024-12-09 | MTBLS7425 | MetaboLights
TranscriptomicsNext Generation Sequencing Facilitates Quantitative Analysis of Wild Type and rea1 mutant total and polysome-bound Transcriptomes
Analysis of gene expression level. The hypothesis tested in the present study was that rea1 mutant influence the translation level of translation and nucleosome assembly associated genes. Results provide important information of the gene translation level regulation of ribosome proteins, elongation...
ORGANISM(S): Zea mays 
2015-04-25 | E-GEOD-67083 | biostudies-arrayexpress
ProteomicsVisualization of early ribosome assembly in action
Ribosomes, macromolecular machines producing a cell´s protein content, are formed from their RNA and protein components in a dynamic process referred to as ribosome assembly. While ribosome assembly in the cell starts with the successive synthesis of ribosomal RNA (rRNA) by the RNA polymerase holoen...
ORGANISM(S): Escherichia coli 
2022-09-05 | PXD030312 | Pride
Ribosome assembly 
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 
ProteomicsThe RNA helicase Dbp10 coordinates assembly factor association with PTC formation during ribosome biogenesis
During ribosome biogenesis a plethora of assembly factors and essential enzymes drive the unidirectional maturation of nascent pre-ribosomal subunits. The DEAD-box RNA helicase Dbp10 is suggested to restructure pre-ribosomal rRNA of the evolving peptidyl-transferase center (PTC) on nucleolar ribosom...
ORGANISM(S): Saccharomyces cerevisiae Saccharomyces cerevisiae (Baker's yeast) 
2024-05-22 | PXD046068 | Pride
Ribosome assembly. pre-60s Assembly factors S. cerevisiae 
TranscriptomicsRunx1 deficiency decreases ribosome biogenesis and confers stress resistance to hematopoietic stem and progenitor cells
The transcription factor RUNX1 is frequently mutated in myelodysplastic syndrome and leukemia. RUNX1 mutations can be early events, creating pre-leukemic stem cells that expand in the bone marrow. Here we show that, counter-intuitively, Runx1 deficient hematopoietic stem and progenitor cells (HSPCs)...
ORGANISM(S): Mus musculus 
2015-07-27 | E-GEOD-67609 | biostudies-arrayexpress
TranscriptomicsSuhB associates with Nus factors to facilitate 30S ribosome biogenesis in Escherichia coli
This experiment consists of two studies. The first where two independent biological replicates of MG1655, MG1655 thyA suhB::thyA and MG1655 thyA nusB::thyA were each grown in LB to mid-exponential phase. RNA-seq and associated data analysis were performed as described previously (Stringer et al., 20...
ORGANISM(S): Escherichia coli str. K-12 substr. MG1655 
2016-01-20 | E-MTAB-4240 | biostudies-arrayexpress
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