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Series GSE33632 Query DataSets for GSE33632
Status Public on Jun 04, 2013
Title Genome-wide analysis of histone eviction by FAIRE-Seq
Organisms Homo sapiens; Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary A major class of chemotherapeutics targets topoisomerase II for DNA double-strand breaks and cancer cell elimination. We compare four members of this class?the anthracyclines doxorubicin, daunorubicin and aclarubicin that does not induce DNA breaks?and a different compound, etoposide. We define a novel activity for anthracyclines: histone eviction from open chromosomal areas. Since histone variant H2AX is also evicted, DNA damage response is attenuated when compared to etoposide. Histone eviction also affects the epigenetic code and deregulates the transcriptome in cancer cells and organs such as the heart. Histone eviction by anthracyclines can drive apoptosis of topoisomerase-negative acute myeloid leukemia blasts in patients. Doxo- and daunorubicin combine the activities of two anti-cancer drugs: etoposide for DNA damage and aclarubicin for histone eviction. We define a novel mechanism of action of anti-cancer drugs doxo- and daunorubicin on chromatin biology with profound consequences on DNA damage responses, epigenetics, transcription, side effects and anti-cancer activities.
Overall design Comparison of histone occupancy of cells or tissues treated with topoisomerase II inhibitors to un-treated ones by FAIRE-seq.
Contributor(s) Qiao X, Pang B, Velds A, Kerkhoven R, van Tellingen O, Neefjes J
Citation(s) 23715267
Submission date Nov 11, 2011
Last update date May 15, 2019
Contact name Baoxu Pang
Organization name Stanford University
Department Genetics
Lab Michael Snyder
Street address 3165 Porter Drive
City Palo Alto
State/province CALIFORNIA
ZIP/Postal code 94304
Country USA
Platforms (3)
GPL10999 Illumina Genome Analyzer IIx (Homo sapiens)
GPL11154 Illumina HiSeq 2000 (Homo sapiens)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (13)
GSM831860 SW620 un-treated FAIRE-seq
GSM831861 SW620 aclarubicin FAIRE-seq
GSM831862 SW620 doxorubicin FAIRE-seq
This SubSeries is part of SuperSeries:
GSE33634 Topoisomerase II inhibitors and histone eviction
SRA SRP009322
BioProject PRJNA154327

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Supplementary file Size Download File type/resource
GSE33632_RAW.tar 5.5 Gb (http)(custom) TAR (of BAM, BED)
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Raw data are available in SRA
Processed data provided as supplementary file

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