Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Analysing environmentally induced genome-wide frameshift in S. cerevisiae using ribosome profiling

ABSTRACT: Analysing environmentally induced genome-wide frameshift in S. cerevisiae using ribosome profiling

PROVIDER: PRJNA957827 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

Analysing environmentally induced genome-wide frameshift

Project description:Analysing environmentally induced genome-wide frameshift

| PRJNA957825 | ENA

Analysing environmentally induced genome-wide frameshift in S. cerevisiae using SLAM-Seq

Project description:Analysing environmentally induced genome-wide frameshift in S. cerevisiae using SLAM-Seq

| PRJNA957829 | ENA

Analysing environmentally induced genome-wide frameshift in S. cerevisiae and bacteria using 5PSeq

Project description:Analysing environmentally induced genome-wide frameshift in S. cerevisiae and bacteria using 5PSeq

| PRJNA957826 | ENA

Analysing environmentally induced genome-wide frameshift in S. cerevisiae using SLAM-Seq

Project description:In this study, we examine the impact of poor nutrient conditions on -1 ribosome frameshifting and its effect on mRNA degradation. To measure the RNA degradation, we utilized SLAM-seq (Herzog, et.al, 2017, PMID: 28945705) in S.cerevisiae in wildtype and NMD mutant (upf1Δ). Our goal with SLAM-seq is to quantify the fraction of the transcriptome that is directly degraded as a result of environmentally induced ribosome frameshifts through an NMD-dependent mechanism.

2025-05-14 | GSE230204 | GEO

Analysing environmentally induced genome-wide frameshift in S. cerevisiae using ribosome profiling

Project description:In this study, we examine the impact of poor nutrient conditions on -1 ribosome frameshifting and its effect on mRNA degradation. To explore this process, we utilized Ribosome profiling (Ingolia, et.al 2009, PMID: 19213877), in S.cerevisiae in low nutrients condition. Our goal with Ribosome profiling was to identify gene- and codon-specific features that contribute to genome-wide frameshifting events.

2025-05-14 | GSE230203 | GEO

Analysing environmentally induced genome-wide frameshift in S. cerevisiae and bacteria using 5PSeq

Project description:In this study, we examine the impact of poor nutrient conditions on -1 ribosome frameshifting and its effect on mRNA degradation.To explore this process, we utilized HT-5PSeq (Zhang & Pelechano, 2021, PMID:35474692) to measure the ribosome footprint of co-translationally degraded mRNAs in S.cerevisiae under different stresses in YPD and CSM (poor nutrients). To show the mechanism is conserved in bacteria, we performed HT-5PSeq in B.subtilis upon starvation .Our goal with HT-5PSeq is to identify gene- and codon-specific features that contribute to genome-wide frameshifting events.

2025-05-14 | GSE230202 | GEO

Analysing environmentally induced genome-wide frameshift

Project description:This SuperSeries is composed of the SubSeries listed below.

2025-05-14 | GSE230205 | GEO

Analysing the effect of cellular energy levels on codon-specific ribosome occupancy in vivo

Project description:The aim of this study is to evaluate how cellular energy levels shape codon-specific decoding and affect codon-mediated mRNA degradation. To this end we made use of HT5P-seq (Zhang & Pelechano, 2021, PMID:35474692) in S. cerevisiae to footprint the ribosome of co-translationally degraded mRNAs in vivo upon swift changes in the concentration of intracellular ATP and other energy metabolites.

2024-03-08 | GSE216524 | GEO

Ribosomes modulate transcriptome abundance via generalized frameshift and out-of-frame mRNA decay

Project description:Proteomic analysis of yeast samples incubated in standard (YPD) and nutritionally poor (CSM) conditions. Nutritionally poor media induces a higher probability of ribosome frameshift and out-of-frame mRNA decay.

2025-05-14 | PXD042854 | Pride

Analysing the effect of cellular energy levels on codon-specific ribosome occupancy in vivo

Project description:Analysing the effect of cellular energy levels on codon-specific ribosome occupancy in vivo

| PRJNA894167 | ENA