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Ribosome profiling data of HEK293T cells treated with C13-benzamidyl cycloheximide

ABSTRACT: Ribosome profiling data of HEK293T cells treated with C13-benzamidyl cycloheximide

PROVIDER: PRJNA764910 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR15992486.fastq.gz	Fastqsanger.gz
	SRR15992487.fastq.gz	Fastqsanger.gz
	SRR15992488.fastq.gz	Fastqsanger.gz
	SRR15992489.fastq.gz	Fastqsanger.gz

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Ribosome profiling data of HEK293T cells treated with C13-benzamidyl cycloheximide

Project description:We performed ribosome profiling in HEK293T cells with treatment with either C13-benzamidyl cycloheximide (hereafter "benzamide") or cycloheximide.

2021-09-28 | GSE184519 | GEO

Ribosome profiling in transgenic and HEK293T cells treated with NAEK

Project description:To investigate whether natural TAG was decoded by stably transfected Mb pyltRNA in transgenic cells, their cell lysate was subjected to ribosome profiling, examining the physical locations of ribosomes. HEK293T cells were taken as control.

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Ribosome profiling in transgenic and HEK293T cells

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Ribosome profiling in transgenic and HEK293T cells treated with NAEK

Project description:Ribosome profiling in transgenic and HEK293T cells treated with NAEK

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Project description:To investigate whether natural TAG can be decoded by stably transfected pyltRNA, whole cell lysate of transgenic cells was collected 48h after the addition of NAEK and subjected to ribosome profiling, examining the physical locations of ribosomes along 15662 TAG terminated transcripts. And HEK293T cells were taken as control.

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Effects of cycloheximide (CHX) on ribosome profiling experiments in Schizosaccharomyces pombe

Project description:Effects of cycloheximide (CHX) on ribosome profiling experiments in Schizosaccharomyces pombe

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Humans and other commonly used model organisms are resistant to cycloheximide-mediated biases in ribosome profiling experiments

Project description:Ribosome profiling measures genome-wide translation dynamics at sub-codon resolution. Cycloheximide (CHX), a widely used translation inhibitor to arrest ribosomes in these experiments, has been shown to induce biases in yeast, questioning its use. However, whether such biases are present in datasets of other organisms including humans is unknown. Here we compare different CHX-treatment conditions in human cells and yeast in parallel experiments using an optimized protocol. We find that human ribosomes are not susceptible to conformational restrictions by CHX, nor does it distort gene-level measurements of ribosome occupancy, measured decoding speed or the translational ramp. Furthermore, CHX-induced codon-specific biases on ribosome occupancy are not detectable in human cells or other model organisms. This shows that reported biases of CHX are species-specific and that CHX does not affect the outcome of ribosome profiling experiments in most settings. Our findings provide a solid framework to conduct and analyze ribosome profiling experiments.

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Mitoribosome profiling (MitoRiboSeq) data from HEK293T wild-type, TACO1 knockout, and TACO1 reconstituted cells

Project description:Mitochondrial translation was investigated by mitochondrial ribosome profiling (mitoRiboSeq) in three HEK293T cell lines: HEK293T wild-type (WT), TACO1 knockout (TACO1-KO), and TACO1 reconstituted (TACO1-KO + TACO1) cells

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Ribosome profiling of Tunicamycin-treated and -untreated 17Cl1 cells

Project description:Ribosome profiling (RiboSeq) analysis of murine 17 clone 1 (17Cl-1) cells with and without Tunicamycin treatment. Tunicamycin is known to induce the unfolded protein response, and the objective of this work was to assess the impact of Tunicamycin on cellular translation. Additionally, we sought to assess the impact of differing library preparation methods by using three separate approaches: flash freezing, 1X Cycloheximide, and 100X Cycloheximide.

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Expression data from Murine T cell in response to cycloheximide treatment

Project description:Cycloheximide has been used for inhibiting protein synthesis in order to identify IL-2 direct targeted genes in T cells, but the effects of cycloheximide itself on genomewide genes are not well defined We conducted a global analysis of cycloheximide regulated genes in mouse T cell line CTLL-2 using Affymetrix mouse genome array, and identified 213 genes differentially expressed (?1.5-fold change) in response to cycloheximide 30min after adding cylcoheximide to T cells cultured without IL-2 for 14 hours. These genes involve in a number biological processes. Keywords: stress response

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