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E-MEXP-1171

ABSTRACT: Transcription profiling by array of human colorectal carcinoma cell line HCT116 treated with SN38 (7-ethyl-10-hydroxy-20(S)-camptothecin)and sampled at 3 timepoints

PROVIDER: E-MEXP-1171 | ExpressionAtlas | 2025-01-22

REPOSITORIES: ExpressionAtlas

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Dataset's files

Source:

			Action	DRS
	E-MEXP-1171-analysis-methods.tsv	Tabular
	E-MEXP-1171-atlasExperimentSummary.Rdata	Rdata
	E-MEXP-1171-configuration.xml	Xml
	E-MEXP-1171-percentile-ranks.tsv	Tabular
	E-MEXP-1171.condensed-sdrf.tsv	Tabular

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Project description:To determine effects of p53 activation on levels of RNA associated with polysomes, we performed RNA-seq analysis of colorectal carcinoma cell line HCT116, breast carcinoma line MCF7, and osteosarcoma line SJSA treated with MDM2 inhibitor Nutlin.

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Total RNA-seq from HCT116, MCF7 and SJSA cell lines treated with DMSO and Nutlin

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Project description:The human colorectal cancer cell line HCT116 was cultured in media alone, with gemcitabine (GEM), oxaliplatin (OXP), docetaxel (DOC), Artesunate (ARS), Lenalidomide, camptothecin (CAM) or interferon-γ for 4 hours. RNA was then isolated from from the cells by Trizol. Total RNA was labelled and hybridised to Illumina Human HT-12v3 arrays.

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Project description:DNA topoisomerase I (Top1) is required for transcription as it relaxes positive and negative supercoils by forming transient Top1 cleavage complexes (Top1cc) up- and down-stream of transcription complexes. However, Top1cc can also be trapped by endogenous DNA lesions and by camptothecin (CPT) and its anticancer derivatives, which results in transcription blocks. Here, we undertook a genome-wide analysis of the effects of CPT on gene expression at exon resolution. We tested the impact of Top1 inhibition on gene expression at the genome-wide level in human colon carcinoma HCT116 and human breast carcinoma MCF7 cells. The RNA of cells treated with camptothecin (CPT) for various times was analyzed with Affy Exon array (GeneChip Human Exon 1.0 ST array). Moreover, we tested the impact of Top1 down-regulation on gene expression at the genome-wide level in human colon carcinoma HCT116 cells. The RNA of cells treated transfected with a Top1 siRNA was analyzed with Affy Exon array (GeneChip Human Exon 1.0 ST array).

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