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3' UTR RNA-seq of EGFR-mutant PC9 cells and drug-resistant clones

ABSTRACT: 3' UTR RNA-seq of EGFR-mutant PC9 cells and drug-resistant clones

PROVIDER: PRJEB62844 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR11523483.fastq.gz	Fastqsanger.gz
	ERR11523484.fastq.gz	Fastqsanger.gz
	ERR11523485.fastq.gz	Fastqsanger.gz
	ERR11523486.fastq.gz	Fastqsanger.gz
	ERR11523487.fastq.gz	Fastqsanger.gz

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3' UTR RNA-seq of EGFR-mutant PC9 cells and drug-resistant clones

Project description:EGFR-mutant lung adenocarcnioma cell line PC9 pools were treated with different compounds until resistant cells regrew. Resistant and parental cells were then sequenced to study transcriptional changes.

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Drug tolerant persister cells of EGFR-mutant cell line under kinase-inhibitor combination

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Project description:Given the recent reports on the role of AXL in mediating resistance to EGFR-targeted therapy, we generated cell line models of Erlotinib-resistance to investigate the effect of AXL inhibitors on EGFR TKI resistance. For this, EGFR-mutant PC9 cells were passed through a persister bottleneck by applying strong drug selection pressure to generate drug-tolerant erlotinib persister cells. We created four Erlotinib-resistant clones from one parental population; S1-34, S2-10, S2-17 and S2-30. Whole exome and RNA sequencing analyses were performed to probe the differences in Erlotinib-resistance mechanisms present in these persister-derived Erlotinib-resistant cells.

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Project description:The non-small cell lung carcinoma (NSCLC) PC9 cell line is an established preclinical model for tyrosine kinase inhibitors. To better understand gene expression changes in cells that survived the inhibitor treatment, we treated the EGFR-mutant PC9 cells with erlotinib, isolated RNA, and performed RNA-seq analysis. We were able to identify genes that are differentially expressed in erlotinib-treated cells compared to untreated. The results of this study will be integrated with single cell RNA-seq to address the utility of bulk RNA versus single cell RNA strategies in identifying biomarkers of drug resistance.

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