Similar studies for GEO DataSets (Select 200168445) - GEO DataSets

Select item 2001684451.

Transcriptome and translatome of ribosomal protein-deficient human cells

(Submitter supplied) Human ribosomes are made of around 80 ribosomal proteins (RPs) and four ribosomal RNAs. To explore gene expression regulation by RPs at the transcriptional and translational levels, parallel RNA-seq and Ribo-seq were conducted in A549 cells after knockdown of individual RP.

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing; Other

Platforms:: GPL24676 GPL20795
204 Samples

Download data: TXT

Series

Accession:: GSE168445

ID:: 200168445

PubMed Full text in PMC Similar studies Analyze with GEO2R SRA Run Selector

Select item 2001211892.

Small and large ribosomal subunit deficiencies lead to distinct gene expression signatures that reflect cellular growth rate

(Submitter supplied) Levels of the ribosome, the conserved molecular machine that mediates translation, are tightly linked to cellular growth rate. In humans, ribosomopathies are diseases associated with cell-type-specific pathologies and reduced ribosomal protein (RP) levels. Because gene expression defects resulting from ribosome deficiency have not yet been experimentally defined, we systematically probed mRNA, translation, and protein signatures that were either unlinked or linked to cellular growth rate in RP-deficient yeast cells. more...

Organism:: Saccharomyces cerevisiae

Type:: Expression profiling by high throughput sequencing; Other

Platform:: GPL17342
50 Samples

Download data: TXT

Series

Accession:: GSE121189

ID:: 200121189

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001144843.

Ribosomal Proteins Regulate MHC Class I Peptide Generation for Immunosurveillance

(Submitter supplied) The MHC class I antigen presentation system enables T cell immunosurveillance of cancers and viruses. Rapidly degraded nascent polypeptides (DRiPs) provide many class I peptide ligands. By knocking down each of the 80 ribosomal proteins, we identified proteins that modulate peptide generation without altering source protein expression. We show that 60S ribosomal proteins L6 (RPL6) and RPL28, which are adjacent on the ribosome, play opposite roles in generating an influenza A virus encoded peptide. more...

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL10558
14 Samples

Download data: TXT

Series

Accession:: GSE114484

ID:: 200114484

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000733574.

Heterogeneous ribosomes exist and selectively translate distinct subpools of mRNAs in stem cells

(Submitter supplied) Emerging studies have linked the ribosome to more selective control of gene regulation. However, an outstanding question is whether ribosome heterogeneity at the level of core ribosomal proteins (RPs) enables ribosomes to preferentially translate specific mRNAs genome-wide. Here, we measured the absolute abundance of RPs in translating ribosomes and profiled transcripts that are enriched or depleted from select subsets of ribosomes within embryonic stem cells. more...

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing; Other

Platform:: GPL19057
20 Samples

Download data: TXT

Series

Accession:: GSE73357

ID:: 200073357

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001329735.

Pol5 is required for recycling of small subunit biogenesis factors and for formation of the polypeptide exit tunnel of the large ribosomal subunit

(Submitter supplied) More than 200 assembly factors (AFs) are required for the production of ribosomes in yeast. The stepwise association and dissociation of these AFs with the pre-ribosomal subunits occurs in a strictly hierarchical manner to ensure correct maturation of the pre-rRNAs and assembly of the ribosomal proteins. Although decades of research have provided a wealth of insights into the functions of many AFs, others remain poorly characterized. more...

Organism:: Saccharomyces cerevisiae

Type:: Other

Platform:: GPL13821
2 Samples

Download data: TXT

Series

Accession:: GSE132973

ID:: 200132973

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001353366.

Paralog-specific phenotypes of ribosomal protein mutants identify translational control mechanisms in the cell cycle and replicative longevity

(Submitter supplied) The translational efficiency of mRNAs of cells progressing synchronously through the mitotic cell cycle has been interrogated by ribosome profiling.

Organism:: Saccharomyces cerevisiae

Type:: Expression profiling by high throughput sequencing; Other

Platform:: GPL21656
192 Samples

Download data: TXT, XLSX

Series

Accession:: GSE135336

ID:: 200135336

PubMed Full text in PMC Similar studies

Select item 2001852327.

RNA-seq for siRpl14+siDux/siRpl11

(Submitter supplied) Bulk RNA-seq were performed on E14 cells knockdown with siRNA; siRpl14+siDux; siRpl14+siRpl11

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL21103
22 Samples

Download data: TXT

Series

Accession:: GSE185232

ID:: 200185232

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001791248.

RNA-seq for siRNA 48h

(Submitter supplied) Bulk RNA-seq were performed on E14 cells knockdown with siRNA

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL21103
15 Samples

Download data: TXT

Series

Accession:: GSE179124

ID:: 200179124

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001671829.

E14 cells knockdown with siRNA or shRNA

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL21103
12 Samples

Download data: BW, NARROWPEAK

Series

Accession:: GSE167182

ID:: 200167182

PubMed Full text in PMC Similar studies

Select item 20016717710.

ATAC-seq for E14 cells knockdown with siRNA or shRNA

(Submitter supplied) ATAC-seq was performed on cells E14 cells knockdown with siRNA or shRNA

Organism:: Mus musculus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL21103
8 Samples

Download data: BW

Series

Accession:: GSE167177

ID:: 200167177

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20012805511.

Gene expression profile during senescence induced by LSG1 knockdown

(Submitter supplied) In the present study, we analyze the effect of knocking down LSG1 and KRas(V12D) overexpression in MRC5 cells in the transcriptome using Ampliseq RNA sequencig. We observed that shLSG1 induced a potent senescence response that is characterized by the activation of ER-Stress and cholesterol biosynthetic pathway

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL17303
9 Samples

Download data: TXT

Series

Accession:: GSE128055

ID:: 200128055

PubMed Full text in PMC Similar studies Analyze with GEO2R SRA Run Selector

Select item 20015871412.

The DYRK1A protein kinase is recruited to a subset of ribosomal protein gene promoters in human and mouse cells [HeLa RNA-seq]

(Submitter supplied) Ribosomal protein genes (RPGs) coding sequences are highly conserved along evolution; however, promoter features and the machinery involved in their transcriptional regulation are not. In eukaryotes, the main genomic elements and players involved in RPG transcriptional regulation have been mostly characterized in Saccharomyces cerevisiae. However, given the lack of evolutionary conservation of the yeast factors, studies in higher eukaryotes have focused on searching for differential enrichment of transcription factor-binding motifs within the RPG promoters. more...