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Series GSE109411 Query DataSets for GSE109411
Status Public on Apr 17, 2018
Title BRD4 profiling identifies critical Chronic Lymphocytic Leukemia oncogenic circuits and reveals sensitivity to PLX51107, a novel structurally distinct BET inhibitor [ChIP-seq]
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Bromodomain and extra-terminal (BET) family proteins are key regulators of gene expression in cancer. Herein, we utilize BRD4 profiling to identify critical pathways involved in pathogenesis of chronic lymphocytic leukemia (CLL). BRD4 is over-expressed in CLL and is enriched proximal to genes up-regulated or de novo expressed in CLL with known function in disease pathogenesis and progression. These genes, including key members of the BCR signaling pathway, provide rationale for this therapeutic approach to identify new targets in alternative types of cancer. Additionally, we describe PLX51107, a structurally distinct BET inhibitor with novel in vitro and in vivo pharmacologic properties that emulates or exceeds the efficacy of BCR signaling agents in pre-clinical models of CLL. Herein, the discovery of the involvement of BRD4 in the core CLL transcriptional program provides a compelling rationale for clinical investigation of PLX51107 as epigenetic therapy in CLL and application of BRD4 profiling in other cancers.
 
Overall design ChIP-sequencing profiles of BRD4, H3K27Ac and RNA Pol 2, and ATAC-seq profiles for four patient cell lines under basal, stimulated and treated conditions.
 
Contributor(s) Lapalombella R, Byrd JC, Ozer HG
Citation(s) 29386193
Submission date Jan 19, 2018
Last update date Mar 26, 2019
Contact name Hatice Gulcin Ozer
E-mail(s) ozer.9@osu.edu
Phone 614-366-1538
Organization name The Ohio State University
Department Biomedical Informatics
Street address 1800 Cannon Dr
City Columbus
State/province OH
ZIP/Postal code 43210
Country USA
 
Platforms (2)
GPL18573 Illumina NextSeq 500 (Homo sapiens)
GPL20301 Illumina HiSeq 4000 (Homo sapiens)
Samples (49)
GSM2942513 BRD4_ChIPseq_1a
GSM2942514 BRD4_ChIPseq_1b
GSM2942515 BRD4_ChIPseq_1c
This SubSeries is part of SuperSeries:
GSE109593 BRD4 profiling identifies critical Chronic Lymphocytic Leukemia oncogenic circuits and reveals sensitivity to PLX51107, a novel structurally distinct BET inhibitor
Relations
BioProject PRJNA430819
SRA SRP131126

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Supplementary file Size Download File type/resource
GSE109411_0007Ohio_CLL_BRD4_2nd_actregs.xlsx.gz 5.6 Mb (ftp)(http) XLSX
GSE109411_0007Ohio_CLL_H3K27Ac_2nd_actregs.xlsx.gz 5.7 Mb (ftp)(http) XLSX
GSE109411_0007Ohio_CLL_Pol2_2nd_actregs.xlsx.gz 4.9 Mb (ftp)(http) XLSX
GSE109411_0086Ohio_CLL_BRD4_actregs.xlsx.gz 5.6 Mb (ftp)(http) XLSX
GSE109411_0086Ohio_CLL_H3K27Ac_actregs.xlsx.gz 6.7 Mb (ftp)(http) XLSX
GSE109411_0086Ohio_Pol2_actregs.xlsx.gz 3.4 Mb (ftp)(http) XLSX
GSE109411_RAW.tar 4.2 Mb (http)(custom) TAR (of BED)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record
Processed data provided as supplementary file

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