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Series GSE200699 Query DataSets for GSE200699
Status Public on Oct 28, 2022
Title Integrator endonuclease drives promoter-proximal termination at all RNAPII transcribed loci (RNA-Seq)
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Pausing of RNA polymerase II (RNAPII) in early elongation is critical for gene regulation. Paused RNAPII can be released into productive elongation by the kinase P-TEFb or targeted for premature termination by the Integrator complex. Integrator comprises endonuclease and phosphatase activities, driving termination through cleavage of nascent RNA and removal of stimulatory phosphorylation. To probe the direct consequences of Integrator activity, we generated a degron system to rapidly deplete the Integrator endonuclease INTS11. Degradation of INTS11 elicits a nearly universal increase in RNAPII escape from promoter regions. However, these RNAPII complexes fail to achieve optimal elongation rates and reveal continued Integrator phosphatase activity. Short transcripts are thus selectively upregulated by INTS11 loss, including many non-coding RNAs, transcription factors and signaling regulators. Together, our data indicate a common function for INTS11 at all RNAPII loci, with differential effects on particular genes, pathways or RNA biotypes reflecting transcript lengths rather than Integrator specificity.
Overall design Examination of 6 samples by RNA-seq (3 biological replicate sets of F121-9 cells: control knockdown; INTS11 knockdown); also 2 biological replicate sets of untreated F121-9 cells
Contributor(s) Adelman K, Wagner EJ, Stein CB, Field AR, Mimoso CA, Zhao C, Huang K
Citation(s) 36309014
Submission date Apr 12, 2022
Last update date Jan 27, 2023
Contact name Karen Adelman
Organization name Harvard Medical School
Department Biological Chemistry and Molecular Pharmacology
Street address 45 Shattuck St. LHRRB-201a
City Boston
State/province MA
ZIP/Postal code 02115
Country USA
Platforms (2)
GPL19057 Illumina NextSeq 500 (Mus musculus)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (8)
GSM6042438 WT RNA-seq Rep 1
GSM6042439 WT RNA-seq Rep 2
GSM6042440 siNT RNA-seq Rep 1
This SubSeries is part of SuperSeries:
GSE200702 Integrator endonuclease drives promoter-proximal termination at all RNAPII transcribed loci
BioProject PRJNA826102

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Supplementary file Size Download File type/resource 252.8 Mb (ftp)(http) BW 244.1 Mb (ftp)(http) BW 521.2 Mb (ftp)(http) BW 535.4 Mb (ftp)(http) BW 500.2 Mb (ftp)(http) BW 513.7 Mb (ftp)(http) BW
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