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Series GSE100708 Query DataSets for GSE100708
Status Public on Apr 05, 2018
Title SLAM-seq defines direct gene-regulatory functions of the BRD4-MYC axis [SLAM-seq]
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Defining direct targets of transcription factors and regulatory pathways is key to understanding their role in physiology and disease. Here we combine SLAM-seq, a novel method for direct quantification of newly synthesized mRNAs, with pharmacological and rapid chemical-genetic perturbation to interrogate primary transcriptional targets of BRD4 and MYC and define the response to BET bromodomain inhibitors (BETi). While BRD4 acts as a global co-activator of Pol2-dependent transcription in a BET bromodomain-dependent manner, therapeutic BETi doses deregulate a small set of hypersensitive target genes. In contrast to BRD4, MYC primarily acts as a selective transcriptional activator that controls basic metabolic processes such as ribosome biogenesis and de-novo purine synthesis across diverse cancer contexts. Beyond defining primary regulatory functions of BRD4 and MYC in cancer, our study establishes a simple, robust and scalable approach to dissect direct transcriptional targets of any gene or pathway.
Overall design Baseline gene expression profiling of clonal cell lines engineered to express AID-tagged proteins and unedited controls by 3'mRNA sequencing.
Contributor(s) Muhar M, Ebert A, Neumann T, Umkehrer C, Wieshofer C, Obenauf AC, Popow J, Ameres SL, Zuber J
Citation(s) 29622725
Submission date Jun 30, 2017
Last update date Jul 25, 2021
Contact name Matthias Muhar
Organization name Research Institute for Molecular Pathology
Street address Campus-Vienna-Biocenter 1
City Vienna
State/province -
ZIP/Postal code 1030
Country Austria
Platforms (2)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
GPL18460 Illumina HiSeq 1500 (Homo sapiens)
Samples (104)
GSM2691848 K562_DMSO_exp-1
GSM2691849 K562_flavopiridol_exp-1
GSM2691850 K562_DMSO_exp-2
This SubSeries is part of SuperSeries:
GSE111463 SLAM-seq defines direct gene-regulatory functions of the BRD4-MYC axis
BioProject PRJNA393189
SRA SRP111133

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Supplementary file Size Download File type/resource
GSE100708_RAW.tar 125.8 Mb (http)(custom) TAR (of TSV)
GSE100708_deseq2_outputs_summary_Muhar_et_al_2018.tar.gz 3.6 Mb (ftp)(http) TAR
GSE100708_hg38_refseq_062016_ensemblv84_3UTR.bed.gz 613.8 Kb (ftp)(http) BED
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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