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Series GSE131334 Query DataSets for GSE131334
Status Public on Apr 21, 2023
Title Oncogenic CDK13 Mutations Impede Nuclear RNA Surveillance
Organisms Danio rerio; Homo sapiens; Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Expression profiling by high throughput sequencing
Summary RNA surveillance pathways detect and degrade defective transcripts to ensure RNA fidelity. We find disrupted nuclear RNA surveillance is oncogenic. Cyclin Dependent Kinase 13 (CDK13) is mutated in melanoma and patient-mutated CDK13 accelerates zebrafish melanoma. CDK13 mutation causes aberrant RNA stabilization. CDK13 is required for ZC3H14 phosphorylation, which is necessary and sufficient to promote nuclear RNA degradation. Mutant CDK13 fails to activate nuclear RNA surveillance, causing aberrant protein-coding transcripts to be stabilized and translated. Forced aberrant RNA expression accelerates melanoma in zebrafish. We find recurrent mutations in genes encoding nuclear RNA surveillance components in many malignancies, establishing nuclear RNA surveillance as a tumor-suppressive pathway. Activating nuclear RNA surveillance is crucial to avoid accumulation of aberrant RNAs and their ensuing consequences in development and disease.
Overall design Refer to individual Series
Contributor(s) Insco ML, Abraham BJ, Dubbury SJ, Kaltheuner IH, Dust S, Wu C, Chen KY, Liu D, Bellaousov S, Cox AM, Martin BJ, Zhang T, Ludwig CG, Fabo T, Modhurima R, Esgdaille DE, Henriques T, Brown KM, Chanock SJ, Geyer M, Adelman K, Sharp PA, Young RA, Boutz PA, Zon LI
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Submission date May 16, 2019
Last update date May 02, 2023
Contact name Richard A Young
Phone 617-258-5219
Organization name Whitehead Institute for Biomedical Research
Lab Young Lab
Street address 9 Cambridge Center
City Cambridge
State/province MA
ZIP/Postal code 02142
Country USA
Platforms (4)
GPL11154 Illumina HiSeq 2000 (Homo sapiens)
GPL14875 Illumina HiSeq 2000 (Danio rerio)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Samples (87)
GSM3501183 Cdk13Δ_c11-8_plusDox_rep1
GSM3501184 Cdk13Δ_c11-8_plusDox_rep2
GSM3501185 Cdk13Δ_c14-1_plusDox_rep1
This SuperSeries is composed of the following SubSeries:
GSE123339 Oncogenic CDK13 Mutations Impede Nuclear RNA Surveillance (mouseRNAseq)
GSE131330 Oncogenic CDK13 Mutations Impede Nuclear RNA Surveillance (humanChIPseq)
GSE131332 Oncogenic CDK13 Mutations Impede Nuclear RNA Surveillance (zfChIPseq)
BioProject PRJNA543289

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE131334_RAW.tar 4.3 Gb (http)(custom) TAR (of BW, TXT)
SRA Run SelectorHelp

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