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Manipulation of the human tRNA pool reveals distinct tRNA sets that act in cellular proliferation or cell cycle arrest [genomic_tRNAseq]

ABSTRACT: Manipulation of the human tRNA pool reveals distinct tRNA sets that act in cellular proliferation or cell cycle arrest [genomic_tRNAseq]

PROVIDER: PRJNA686942 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR13280800.fastq.gz	Fastqsanger.gz
	SRR13280900.fastq.gz	Fastqsanger.gz
	SRR13280801_1.fastq.gz	Fastqsanger.gz
	SRR13280801_2.fastq.gz	Fastqsanger.gz
	SRR13280901.fastq.gz	Fastqsanger.gz

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Manipulation of the human tRNA pool reveals distinct tRNA sets that act in cellular proliferation or cell cycle arrest.

Project description:Manipulation of the human tRNA pool reveals distinct tRNA sets that act in cellular proliferation or cell cycle arrest.

| PRJNA686936 | ENA

Manipulation of the human tRNA pool reveals distinct tRNA sets that act in cellular proliferation or cell cycle arrest [tRNA-seq]

Project description:Manipulation of the human tRNA pool reveals distinct tRNA sets that act in cellular proliferation or cell cycle arrest [tRNA-seq]

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Manipulation of the human tRNA pool reveals distinct tRNA sets that act in cellular proliferation or cell cycle arrest [sgRNA-seq]

Project description:Manipulation of the human tRNA pool reveals distinct tRNA sets that act in cellular proliferation or cell cycle arrest [sgRNA-seq]

| PRJNA686943 | ENA

Manipulation of the human tRNA pool reveals distinct tRNA sets that act in cellular proliferation or cell cycle arrest [tRNA-seq]

Project description:Different subsets of the tRNA pool in human are expressed in different cellular conditions. The “proliferation-tRNAs” are induced upon normal and cancerous cell division, while the “differentiation tRNAs” are active in non-dividing, differentiated cells. Here we examine the essentiality of the various tRNAs upon cellular growth and arrest. We established a CRISPR-based editing procedure with sgRNAs that each target a tRNA family. We measured tRNA essentiality for cellular growth and found that most proliferation tRNAs are essential compared to differentiation tRNAs in rapidly growing cell lines. Yet in more slowly dividing lines, the differentiation tRNAs were more essential. In addition, we measured the essentiality of each tRNA family upon response to cell cycle arresting signals. Here we detected a more complex behavior with both proliferation-tRNAs and differentiation-tRNAs showing various levels of essentiality. These results provide the so-far most comprehensive functional characterization of human tRNAs with intricate roles in various cellular states.

2020-12-22 | GSE163609 | GEO

Manipulation of the human tRNA pool reveals distinct tRNA sets that act in cellular proliferation or cell cycle arrest [genomic_tRNAseq]

2020-12-22 | GSE163607 | GEO

Manipulation of the human tRNA pool reveals distinct tRNA sets that act in cellular proliferation or cell cycle arrest [sgRNA-seq]

2020-12-22 | GSE163608 | GEO

Manipulation of the human tRNA pool reveals distinct tRNA sets that act in cellular proliferation or cell cycle arrest.

Project description:This SuperSeries is composed of the SubSeries listed below.

2020-12-22 | GSE163611 | GEO

Chemical manipulation of m1A mediates its detection in human tRNA

Project description:Chemical manipulation of m1A mediates its detection in human tRNA

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tRNA pool analysis of S. cerevisiae using tRNA-HySeq

Project description:For a typical RNA polymerase (pol) II transcribed budding yeast gene, the 5' -end is characterized by a nucleosome-free region (NFR) immediate upstream of the transcription start site (TSS), flanked by two well-positioned nucleosomes (-1 and +1) containing H2A.Z. A similar arrangement of nucleosomes containing H2A.Z is found on the genes transcribed by pol III, which reside in the NFR actively maintained by the chromatin remodeling complexes. We did genome-wide MNase-seq and ChIP-seq experiments to study the nucleosome arrangement near pol III transcribed genes. We also measured the levels of different tRNAs in the tRNA pool of the wild type and Spt16 mutant (*spt16-197*) cells using tRNA-HySeq method. Although, it is difficult to measure the primary transcripts of tRNA due to their quick processing and the sequence degeneracy of the tRNA isogenes; a comparison of the wild type and Spt16 mutant showed both increase or decrease of tRNA transcripts. The result suggest that Spt16 may not be necessary for the transcription per se of tRNA genes.

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tRNA pool analysis of S. cerevisiae using tRNA-HySeq

Project description:tRNA pool analysis of S. cerevisiae using tRNA-HySeq

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