Genomics

Dataset Information

0

Targeting transcriptional dependencies in cancer using a covalent CDK7 inhibitor (ChIP-Seq)


ABSTRACT: Cyclin-dependent kinase 7 (CDK7) plays a critical role in the general regulation of RNA polymerase II-mediated transcription. However, the absence of selective CDK7 inhibitors has hindered the ability to investigate the consequences of acute and prolonged inhibition of CDK7 under normal and pathological conditions. Here we present the discovery and characterization of the first covalent CDK7 inhibitor, CDK7-IN-1, that has the unprecedented ability to target a unique cysteine residue located outside of the canonical kinase domain, providing an unanticipated means of achieving selectivity for CDK7 amongst the 20 known CDKs. Cancer cell line profiling indicates that a subset of cancer cell lines, including T-cell acute lymphoblastic leukemia (T-ALL), exhibit 100-fold greater sensitivity to CDK7-IN-1 over other tumor and normal cell lines. Genome-wide expression analysis in Jurkat T-ALL indicates that CDK7-IN-1 disproportionally affects RUNX1 as well as other components of the TAL1 transcriptional network and its targets, downregulating key regulators of transcription and apoptosis critical for the T-ALL state. These oncogenes are encoded by short-lived mRNA transcripts, are associated with super-enhancers, and exhibit a strong dependency on continuous transcription for sustained expression. Therefore, pharmacological modulation of CDK7 kinase activity may define a method for the identification and treatment of tumor types exhibiting extreme dependencies on transcription for maintenance of the oncogenic state. Jurkat cells were treated with various drugs including a covalent inhibitor of CDK7 (CDK7-IN-1), a reversible inhibitor of CDK7 (CDK7-IN-1), Flavopiridol, Actinomycin D, and DMSO controls. Replicates are annotated.

ORGANISM(S): Homo sapiens  

SUBMITTER: Nathaniel S Grey   Jarrod Marto  Nicholas P Kwiatkowski  Scott Ficarro  Tinghu Zhang  Bethany Tesar  Takaomi Sanda  Douglas McMillin  Cyril H Benes  Richard A Young  Nam D Kim  Jessica Reddy  Constantine Mitsiades  Brian J Abraham  Thomas Look  Jennifer R Brown  Peter B Rahl  Taebo Sim  Anahita Dastur 

PROVIDER: E-GEOD-50622 | ArrayExpress | 2013-12-23

SECONDARY ACCESSION(S): SRP029600GSE50622PRJNA218106

REPOSITORIES: GEO, ArrayExpress, ENA

Similar Datasets

2014-06-22 | E-GEOD-50624 | ArrayExpress
| GSE50624 | GEO
2014-10-23 | E-GEOD-62412 | ArrayExpress
2015-01-23 | E-GEOD-65201 | ArrayExpress
2015-09-24 | E-GEOD-69106 | ArrayExpress
| GSE99794 | GEO
| GSE72022 | GEO
2014-10-23 | E-GEOD-62609 | ArrayExpress
| GSE75814 | GEO
| GSE94259 | GEO