Nonsense mediated decay

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RNAi knock down of known nonsense-mediated mRNA decay (NMD) factors in Drosophila cells

All eukaryotes studied to date have the capacity to detect and degrade mRNAs harboring premature translation termination codons (PTCs) in a process called nonsense-mediated mRNA decay (NMD) (reviewed in Wagner E & Lykke-Andersen J, 2002). This surveillance system allows the cell to prevent the expre...

ORGANISM(S): Drosophila melanogaster

2005-11-01 | E-MEXP-202 | biostudies-arrayexpress

Quality control of transcription start site selection by Nonsense-Mediated-mRNA Decay

Nonsense-mediated mRNA decay (NMD) is a translation-dependent RNA quality-control pathway targeting transcripts such as messenger RNAs harboring premature stop-codons or short upstream open reading frame (uORFs). Our transcription start sites (TSSs) analysis of Saccharomyces cerevisiae cells deficie...

ORGANISM(S): Saccharomyces cerevisiae BY4741

2015-04-24 | E-GEOD-64139 | biostudies-arrayexpress

Transcriptome profiling of Arabidopsis smg7 mutant in immune signaling blocked background

Goal of the study is the identification of transcriptome deregulation of smg7 pad4 mutants, which are deficient in nonsense-mediated mRNA decay and are blocked in immune signaling, which should avoid secondary responses from immune signaling Total RNA (ribosomal RNA depleted) illumina sequencing of ...

ORGANISM(S): Arabidopsis thaliana

2014-09-10 | E-GEOD-55884 | biostudies-arrayexpress

Transcription profiling of mouse T-cell thymocytes and bone marrow-derived macrophages dervied from Upf2fl/fl;LysMCre and Upf2fl/fl;LckCre mice to test the importance of nonsense-mediated mRNA decay on global transcription

Knockdown experiments in transformed human cells, suggested that nonsense-mediated mRNA decay (NMD) components had extensive effects on the regulation of a significant fraction of the transcriptome In order to test the importance of NMD on global transcription we subjected BMDMs and T-cell thymocy...

ORGANISM(S): Mus musculus

2008-11-06 | E-MEXP-1371 | biostudies-arrayexpress

Human Nonsense-Mediated RNA Decay Initiates Widely by Endonucleolysis and Targets snoRNA Host Genes

Eukaryotic RNAs with premature termination codons (PTCs) are eliminated by nonsense-mediated decay (NMD). While human nonsense RNA degradation can be initiated either by an endonucleolytic cleavage event near the PTC or through decapping, the individual contribution of these activities on endogenous...

ORGANISM(S): Homo sapiens

2014-11-18 | E-GEOD-57433 | biostudies-arrayexpress

Transcription profiling of yeast to analyse mRNAs regulated by the nonsense-mediated and 5 to 3 mRNA Decay Pathways

Genome-wide analysis of mRNAs regulated by the nonsense-mediated and 5' to 3' mRNA Decay Pathways in Yeast

ORGANISM(S): Saccharomyces cerevisiae

2011-11-08 | E-MEXP-26 | biostudies-arrayexpress

Nonsense-mediated decay in Plasmodium falciparum

We have HA-tagged two nonsense-mediated decay proteins, UPF1 and UPF2, in the malaria parasite Plasmodium falciparum. We then performed co-immunoprecipitation experiments to determine the protein-protein interactions of these nonsense-mediated decay components.

ORGANISM(S): Plasmodium falciparum (isolate 3D7)

2021-04-16 | PXD023910 | Pride

RNA-Seq of WT Flp-In T-REx 293 and UPF3B knockout cell lines with additional siRNA-mediated control or UPF3A knockdowns

UPF3A and UPF3B are paralogous genes in human cells that are involved in the nonsense-mediated decay (NMD) pathway. NMD is a cellular quality control mechanism that monitors mRNAs during translation. Aberrant translation due to features such as the presence of a premature stop codon downstream on an...

ORGANISM(S): Homo sapiens

2022-04-25 | E-MTAB-10711 | biostudies-arrayexpress

RNA-Seq of WT Flp-In T-REx 293, UPF3B knockout and UPF3A-UPF3B double knockout cell lines with additional siRNA-mediated control or UPF3B knockdowns

ORGANISM(S): Homo sapiens

2022-04-25 | E-MTAB-10716 | biostudies-arrayexpress

RNA-Seq of WT Flp-In T-REx 293, UPF3A knockout and UPF3A overexpression cell lines in part with additional siRNA-mediated control or UPF3B knockdowns

ORGANISM(S): Homo sapiens

2022-08-31 | E-MTAB-10718 | biostudies-arrayexpress

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