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Polysome profiling quantified by RNA sequencing in ERα knockdown and control BM67 cells

ABSTRACT: Polysome profiling quantified by RNA sequencing in ERα knockdown and control BM67 cells

PROVIDER: PRJNA555845 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR9723110.fastq.gz	Fastqsanger.gz
	SRR9723120.fastq.gz	Fastqsanger.gz
	SRR9723130.fastq.gz	Fastqsanger.gz
	SRR9723111.fastq.gz	Fastqsanger.gz
	SRR9723121.fastq.gz	Fastqsanger.gz

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Polysome profiling quantified by DNA-microarrays in ERα knockdown and control BM67 cells

Project description:Polysome profiling quantified by DNA-microarrays in ERα knockdown and control BM67 cells

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Polysome profiling quantified by RNA sequencing in ERα knockdown and control BM67 cells

Project description:Estrogen receptor alpha (ERα) activity is associated with increased cancer cell proliferation. Studies aiming to understand the impact of ERα on cancer-associated phenotypes have largely been limited to its transcriptional activity. Herein, we demonstrate that ERα coordinates its transcriptional output with selective modulation of mRNA translation. Importantly, translational perturbations caused by depletion of ERα largely manifest as "translational offsetting" of the transcriptome, whereby amounts of translated mRNAs and corresponding protein levels are maintained constant despite changes in mRNA abundance. Transcripts whose levels, but not polysome-association, are reduced following ERα depletion lack features which limit translation efficiency including structured 5'UTRs and miRNA target sites. In contrast, mRNAs induced upon ERα depletion whose polysome-association remains unaltered are enriched in codons requiring U34-modified tRNAs for efficient decoding. Consistently, ERα regulates levels of U34-modifying enzymes and thereby controls levels of U34-modified tRNAs. These findings unravel a hitherto unprecedented mechanism of ERα-dependent orchestration of transcriptional and translational programs that may be a pervasive mechanism of proteome maintenance in hormone-dependent cancers.

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Polysome profiling quantified by DNA-microarrays in ERα knockdown and control BM67 cells

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Small RNA sequencing in ERα knockdown and control BM67 cells

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Project description:NanoCAGE in ERα knockdown BM67 cells

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Cytoplasmic mRNA and Heavy polysome-associated mRNAs from U251 Cells treated with Control or eIF3e siRNAs

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Polysomes from DENR knockdown cells

Project description:The aim was to identify transcripts that are poorly translated upon knockdown of DENR. Lysates from control (GFP) and DENR knockdown S2 cells were run on polysome gradients. RNA from the (80S peak + polysome peaks) was isolated and analyzed by microarrays. In parallel, total RNA from the cells was also profiled as a normalization control and profiled. The 'translation score' of translated mRNA to total RNA was then calculated for control and DENR knockdown cells.

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