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Transcriptomic analysis of senescent cells upon PTBP1 knockdown and EXOC7 knockdown

ABSTRACT: Transcriptomic analysis of senescent cells upon PTBP1 knockdown and EXOC7 knockdown

PROVIDER: PRJNA395374 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR5859250_1.fastq.gz	Fastqsanger.gz
	SRR5859250_2.fastq.gz	Fastqsanger.gz
	SRR5859260_1.fastq.gz	Fastqsanger.gz
	SRR5859260_2.fastq.gz	Fastqsanger.gz
	SRR5859300.fastq.gz	Fastqsanger.gz

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Transcriptomic analysis of senescent cells upon PTBP1 knockdown.

Project description:IMR90 ER:RAS cells were stably transduced with either an empty vector or 2 deconvoluted shRNAs targeting PTBP1. Following selection with puromycin, the cells were treated with 4OHT to induce senescence. 6 days later the cells were collected for total mRNA analysis. PTBP1 is a regulator of alternative splicing. Our previous experiments had shown that PTBP1 depletion inhibits the expression of pro-inflammatory genes without affecting other senescence-associated phenotypes. By performing RNA-seq we confirmed those observations at a global level and analysed how PTBP1 knockdown alters alternative splicing as a potential mechanism of action.

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Transcriptomic analysis of senescent cells upon EXOC7 knockdown.

Project description:IMR90 ER:RAS cells were transfected with scramble siRNA or 2 deconvoluted siRNAs targeting EXOC7 or an siRNA targeting PTBP1. The next day the cells were treated with 4OHT to induce senescence. 5 days later the cells were collected for total mRNA analysis. Our previous experiments had shown that alternative splicing of EXOC7 depends on PTBP1 and PTBP1 is a target for suppressing pro-inflammatory factors in senescence. By performing RNA-seq we confirmed that the pro-inflammatory factors whose expression depends on PTBP1 equally depends on EXOC7.

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Transcriptomic analysis of senescent cells upon PTBP1 knockdown and EXOC7 knockdown

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Project description:We identify a lncRNA which low expresses and regulates self-renewal of bladder cancer stem cell. So we named it lncRNA-LBCS (low expresses in bladder cancer stem cell). Further study finds that lncRNA-LBCS bind to hnRNPK and PTBP1. To investigate the genes regulated by these, we knockdown lncRNA-LBCS, hnRNPK and PTBP1 by siRNA, respectively, and perform high-throughput sequence. So we identify a series of genes regulated by lncRNA-LBCS, hnRNPK and PTBP1, respectively.

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