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RNA-seq of human cell line U2OS treated with chloroquine, amodiaquine and BMH-21

ABSTRACT: RNA-seq of human cell line U2OS treated with chloroquine, amodiaquine and BMH-21

PROVIDER: PRJEB30972 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR3094440.fastq.gz	Fastqsanger.gz
	ERR3094450.fastq.gz	Fastqsanger.gz
	ERR3094460.fastq.gz	Fastqsanger.gz
	ERR3094470.fastq.gz	Fastqsanger.gz
	ERR3094480.fastq.gz	Fastqsanger.gz

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RNA-seq of human cell line U2OS treated with chloroquine, amodiaquine and BMH-21

Project description:Ribosome biogenesis has emerged as a potential target for cancer therapy. We have characterize a new biological activity of the antimalarial drug amodiaquine as a inhibitor of ribosome biogenesis. Interestingly, amodiaquine retains the autophagy inhibitory activity of its analog chloroquine, but in addition, displays properties of the ribosome biogenesis inhibitor BMH-21. We performed a RNAseq analysis to identify shared and unique mechanisms of action among these drugs. Gene expression was profiled in U2OS cell line, using 24 samples divided in 4 treatment groups: Untreated, Amodiaquine, Chloroquine and BMH-21, incubated with compounds for 12 hours.

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Project description:CRISPR screen: U2OS or U2OS p53KO cells expressing Cas9 were transduced with a whole-genome library of CRISPR sgRNAs, then treated with either DMSO or etoposide. Differential sgRNA abundances were calculated for each condition and used to determine the effect of each single gene knockout on fitness and the drug-induced death rate. RNA-Seq: U2OS or U2OS p53KO cells were cultured with either DMSO or etoposide for 48 hours, and then U2OS cells were incubated in this conditioned media for 8 hours. RNA was collected and use to observe differential expression changes between conditions.

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