E-GEOD-37352 - Transcription poisoning by topoisomerase I is controlled by gene length, splice sites and miR-142-3p

Status
Released on 17 April 2013, last updated on 3 May 2014
Organism
Homo sapiens
Samples (15)
Array (1)
Protocols (7)
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).
Experiment type
transcription profiling by array 
Contacts
Michael Ryan <mryan@insilico.us.com>, Barry R Zeeberg, Hongfang Liu, Kurt W Kohn, Mike C Ryan, Stéphanie Solier, Sudhir Varma, Yves Pommier
MIAME
PlatformsProtocolsFactorsProcessedRaw
Files
Investigation descriptionE-GEOD-37352.idf.txt
Sample and data relationshipE-GEOD-37352.sdrf.txt
Raw data (2)E-GEOD-37352.raw.1.zip, E-GEOD-37352.raw.2.zip
Array designA-GEOD-15454.adf.txt
Links