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HuR-dependent translation efficiency (TE) and mRNA expression analysis in hypoxia.

ABSTRACT: HuR-dependent translation efficiency (TE) and mRNA expression analysis in hypoxia.

PROVIDER: PRJNA528039 | ENA |

REPOSITORIES: ENA

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HuR-dependent translation efficiency (TE) and mRNA expression analysis in hypoxia.

Project description:mRNA TE and steady-state levels were measured in hypoxic U87MG cells treated with non-silencing control or HuR-specific siRNA pools followed by ribosome density fractionation.

2020-04-23 | GSE128541 | GEO

Hypoxia-Acidosis translation efficiency (TE) and mRNA expression analysis

Project description:Hypoxia-Acidosis translation efficiency (TE) and mRNA expression analysis

| PRJNA578854 | ENA

Hypoxia-Acidosis translation efficiency (TE) and mRNA expression analysis

Project description:mRNA TE and steady-state levels were measured in normoxic, normoxia-acidosis, hypoxia, hypoxia acidosis U87MG from RNA seq of ribosome density fractionation.

2020-04-23 | GSE139233 | GEO

Oxygen-dependent translation efficiency (TE) and mRNA expression analysis

Project description:Oxygen-dependent translation efficiency (TE) and mRNA expression analysis

| PRJNA528083 | ENA

HIF-2α- and HIF-1α-dependent translation efficiency (TE) and mRNA expression analysis in hypoxia.

Project description:HIF-2α- and HIF-1α-dependent translation efficiency (TE) and mRNA expression analysis in hypoxia.

| PRJNA528091 | ENA

HuR and miR-1192 regulate myogenesis by modulating the translation of HMGB1 mRNA (miRNA)

Project description:Upon muscle injury the high mobility group box 1 (HMGB1) protein is up-regulated and secreted to initiate reparative responses. Here we show that HMGB1 controls myogenesis both in vitro and in vivo, during development and after adult muscle injury. HMGB1 expression in muscle cells is regulated at the translational level: the miRNA miR-1192 inhibits HMGB1 translation and the RNA-binding protein HuR promotes it. HuR binds to a cis-element, HuRBS, located in the 3'UTR of the HMGB1 transcript, and at the same time miR-1192 is recruited to an adjacent seed element. The binding of HuR to the HuRBS prevents the recruitment of Argonaute 2 (Ago2), overriding miR-1192-mediated translation inhibition. Depleting HuR reduces myoblast fusion and silencing miR-1192 re-establishes the fusion potential of HuR-depleted cells. We propose that HuR promotes the commitment of myoblasts to myogenesis by enhancing the translation of HMGB1 and suppressing the translation inhibition mediated by miR-1192. RNA content was extracted following immunoprecipitation of HuR using a monoclonal antibody (3A2) and the levels of mRNA were compared to an IgG control in order to determine which transcripts were enriched in the HuR ribonucleoprotein complex.

2013-08-14 | E-GEOD-49855 | biostudies-arrayexpress

HuR and miR-1192 regulate myogenesis by modulating the translation of HMGB1 mRNA (mRNA)

2013-08-14 | E-GEOD-49856 | biostudies-arrayexpress

HIF-2α- and HIF-1α-dependent translation efficiency (TE) and mRNA expression analysis in hypoxia.

Project description:mRNA TE and steady-state levels were measured in hypoxic U87MG cells treated with non-silencing control or HIF-2α-specific or HIF-1α-specific siRNA pools followed by ribosome density fractionation.

2020-04-23 | GSE128555 | GEO

Cycloheximide can distort measurements of mRNA levels and translation efficiency

Project description:Regulation of the efficiency with which an mRNA is translated into proteins represents a key mechanism for controlling gene expression. Such regulation impacts the number of actively translating ribosomes per mRNA molecule, referred to as translation efficiency (TE), which can be monitored using ribosome profiling and RNA-seq, or by evaluating the position of an mRNA in a polysome gradient. Here we show that in budding yeast, under nutrient limiting conditions, the commonly used translation inhibitor cycloheximide induces rapid transcriptional upregulation of hundreds of genes involved in ribosome biogenesis. Cycloheximide also prevents translation of these newly transcribed messages, leading to an apparent drop in TE of these genes under conditions that include key transitions of the yeast metabolic cycle, meiosis, and amino acid starvation; an effect which is abolished when cycloheximide pretreatment is omitted. This response requires TORC1 signaling, and is modulated by the genetic background as well as the vehicle used to deliver the drug. The present work highlights an important caveat to the use of translation inhibitors when measuring TE, and will hopefully aid in future experimental design as well as interpretation of prior results

2019-03-08 | GSE125038 | GEO

Oxygen-dependent translation efficiency (TE) and mRNA expression analysis

Project description:mRNA TE and steady-state levels were measured in U87MG cells subjected to 21% or 1% oxygen followed by ribosome density fractionation.

2020-04-23 | GSE128547 | GEO

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