Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

BR-body mutant mRNA half-life profiling.

ABSTRACT: BR-body mutant mRNA half-life profiling.

PROVIDER: PRJNA551694 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR9621340.fastq.gz	Fastqsanger.gz
	SRR9621341.fastq.gz	Fastqsanger.gz
	SRR9621332.fastq.gz	Fastqsanger.gz
	SRR9621342.fastq.gz	Fastqsanger.gz
	SRR9621333.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 16

Similar Datasets

BR-body mutant mRNA half-life profiling.

Project description:BR-body mutant strains were globally profiled for mRNA half-lives using rifampicin treatment followed by RNA-seq. JS38 (wild type) was compared to JS221 (lacking the intrinsically disordered CTD and unable to form BR-bodies), JS233 (unable to recruit degradosome components into BR-bodies), and JS299 (active site mutant of RNase E).

2019-06-29 | GSE133532 | GEO

Cell cycle mRNA half-life profiling.

Project description:Cell cycle mRNA half-life profiling.

| PRJNA950409 | ENA

BR-body enrichment for RNA substrate identification.

Project description:BR-body RNA substrates were identified by RNA-seq of enriched BR-body samples compared to cell lysate.

2019-06-29 | GSE133522 | GEO

C. crescentus BR-body enrichment

Project description:Enriched BR-body samples (JS299) samples and negative control samples (JS221) from a strain lacking BR-bodies. BR-body enrichment was performed by differential centrifugation as in 10.1016/j.xpro.2020.100205. Each sample was collected in three biological replicates.

2022-12-13 | MSV000090894 | MassIVE

Cell cycle mRNA half-life profiling.

Project description:mRNA half-life profiling in the bacterium Caulobacter crescentus was performed in synchronized cells collected from different stages of the cell cycle including swarmer cells, stalk cells (45 min post synchrony), and predivisional cells (90 min post synchrony). For each cell population, transcription was disrupted by the antibiotic rifampicin, and RNA samples were collected at different time points to measure the mRNA half-lives.

2023-04-03 | GSE228593 | GEO

Retapamullin and Chloramphenicol treated mRNA half-life profiling.

Project description:Retapamullin and Chloramphenicol treated mRNA half-life profiling.

| PRJNA950406 | ENA

WT, ∆rhlB and ∆rppH mRNA half-life profiling.

Project description:WT, ∆rhlB and ∆rppH mRNA half-life profiling.

| PRJNA950407 | ENA

Buffering of transcription rate by mRNA half-life is a conserved feature of Rett syndrome models

Project description:Models of MECP2 dysfunction in Rett syndrome (RTT) assume that transcription rate changes directly correlate with altered steady-state mRNA levels. However, limited evidence suggests that transcription rate changes are buffered by poorly understood compensatory post-transcriptional mechanisms. Here we measure transcription rate and mRNA half-life changes in RTT patient neurons using RATE-seq, and re-interpret nuclear and whole-cell RNAseq from Mecp2 mice. Genes are dysregulated by changing transcription rate only or half-life only and are buffered when both are changed. We utilized classifier models to understand the direction of transcription rate changes based on gene-body DNA sequence, and combined frequencies of three dinucleotides were better predictors than contributions by CA and CG. MicroRNA and RNA-Binding Protein (RBP) motifs were enriched in 3ʹUTRs of genes with half-life changes. Motifs for nuclear localized RBPs were enriched on buffered genes with increased transcription rate. Our findings identify post-transcriptional mechanisms in humans and mice that alter half-life only or buffer transcription rate changes when a transcriptional modulator gene is mutated in a neurodevelopmental disorder.

2023-01-27 | GSE191168 | GEO

Retapamullin and Chloramphenicol treated mRNA half-life profiling.

Project description:mRNA half-life profiling in the bacterium Caulobacter crescentus was performed in cells that were inhibited in translation initiation (retapamullin) or elongation (chloramphenicol) by shutting of transcription with the antibiotic rifampicin, and following mRNA abundance at 1, 2, 4, 8, and 15 minutes post rifampicin. All RNA measurements were performed on cells grown to mid-log in M2G minimal growth medium. Two biological replicates time coursees were collected from independent starter cultures.

2023-04-03 | GSE228591 | GEO

BR-body enrichment for RNA substrate identification.

Project description:BR-body enrichment for RNA substrate identification.

| PRJNA551690 | ENA