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Int. J. Mol. Sci. 2014, 15(7), 13111-13122; doi:10.3390/ijms150713111
Communication

DNA Break Mapping Reveals Topoisomerase II Activity Genome-Wide

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1 Laboratory of Pathology, NCI/NIH, Bldg 10 Rm 2N106, 10 Center Drive, Bethesda, MD 20892, USA 2 Computational Biology Branch, NCBI/NLM/NIH, Bldg 38a, 8600 Rockville Pike, Bethesda, MD 20894, USA 3 Systems Biology Center, NHLBI/NIH, Bldg 10 Rm 7B06A, 10 Center Drive, Bethesda, MD 20892, USA
* Author to whom correspondence should be addressed.
Received: 31 May 2014 / Revised: 9 July 2014 / Accepted: 14 July 2014 / Published: 23 July 2014
(This article belongs to the Special Issue Identification and Roles of the Structure of DNA)
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Abstract

Genomic DNA is under constant assault by endogenous and exogenous DNA damaging agents. DNA breakage can represent a major threat to genome integrity but can also be necessary for genome function. Here we present approaches to map DNA double-strand breaks (DSBs) and single-strand breaks (SSBs) at the genome-wide scale by two methods called DSB- and SSB-Seq, respectively. We tested these methods in human colon cancer cells and validated the results using the Topoisomerase II (Top2)-poisoning agent etoposide (ETO). Our results show that the combination of ETO treatment with break-mapping techniques is a powerful method to elaborate the pattern of Top2 enzymatic activity across the genome.
Keywords: topoisomerases; DNA damage; transcription topoisomerases; DNA damage; transcription
This is an open access article distributed under the Creative Commons Attribution License (CC BY 3.0).

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Baranello, L.; Kouzine, F.; Wojtowicz, D.; Cui, K.; Przytycka, T.M.; Zhao, K.; Levens, D. DNA Break Mapping Reveals Topoisomerase II Activity Genome-Wide. Int. J. Mol. Sci. 2014, 15, 13111-13122.

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