Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

RNA-seq analysis of control and CDK12-depleted ovarian cancer cells

ABSTRACT: RNA-seq analysis of control and CDK12-depleted ovarian cancer cells

PROVIDER: PRJNA575346 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR10215500_1.fastq.gz	Fastqsanger.gz
	SRR10215500_2.fastq.gz	Fastqsanger.gz
	SRR10215501_1.fastq.gz	Fastqsanger.gz
	SRR10215501_2.fastq.gz	Fastqsanger.gz
	SRR10215502_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 18

Similar Datasets

RNA-seq analysis of control and CDK12-depleted ovarian cancer cells

Project description:We report the differential gene expression in control versus CDK12-depleted OVCAR-8 cells

2019-10-03 | GSE138288 | GEO

RNA-seq analysis of control and ZC3H18-depleted ovarian cancer cells

Project description:RNA-seq analysis of control and ZC3H18-depleted ovarian cancer cells

| PRJNA562626 | ENA

Profiling of differential RNAs in alpha amanitin treated SORBS2-depleted ovarian cancer cells and control-treated SORBS2-depleted

Project description:In this study, we examined the differential RNA profile of alpha amanitin-treated SORBS2-depleted ovarian cancer cells compared with control-treated SORBS2-depleted cells

2018-02-20 | GSE101595 | GEO

Genome-wide analysis of eIF4G-RNA interaction in CDK12-depleted cells (Ribo-Seq)

Project description:Methods: U2OS mRNA profiles of control siRNA(siControl) and siCDK12 were generated by deep sequencing, in triplicate, using Illumina. The sequence reads that passed quality filters were analyzed at the transcript isoform level. Total RNA-Seq was used for normalzation of RIP-Seq signals.Results: We report the application of RNA-immunoprecipitation-based sequencing for high-throughput profiling of mRNA abundence in mammalian cells. We generated genome-wide views of translation rate in CDK12-depleted U2OS cells in comparion to mTOR inhibitor, rapamycin treatment. We find that significant overlap and high corelation of change in eIF4G-associated mRNAs between two condition, rapamycin treatment and siCDK12 transfected cells. This study provides a role of CDK12 in translation control of mammalian cell.

2019-06-12 | GSE121391 | GEO

Genome-wide analysis of eIF4G-RNA interaction in CDK12-depleted cells (RIP-Seq)

Project description:Methods: U2OS mRNA profiles of control siRNA(siControl) and siCDK12 were generated by deep sequencing, in triplicate, using Illumina. The sequence reads that passed quality filters were analyzed at the transcript isoform level. Total RNA-Seq was used for normalzation of RIP-Seq signals. Results: We report the application of RNA-immunoprecipitation-based sequencing for high-throughput profiling of mRNA abundence in mammalian cells. We generated genome-wide views of translation rate in CDK12-depleted U2OS cells in comparion to mTOR inhibitor, rapamycin treatment. We find that significant overlap and high corelation of change in eIF4G-associated mRNAs between two condition, rapamycin treatment and siCDK12 transfected cells. This study provides a role of CDK12 in translation control of mammalian cell.

2019-06-12 | GSE121390 | GEO

Profiling of differential RNAs in SORBS2-depleted ovarian cancer cells and control cells

Project description:In this study, we examined the differential RNA profile of SORBS2-depleted ovarian cancer cells compared with control cells

2018-02-20 | GSE101594 | GEO

Heterochromatin remodeling by CDK12 contributes to learning in Drosophila

Project description:We describe the epigenetic profiling of the H3K9me2 and HP1a in Drosophila third instar larvae before and after CDK12 depletion by RNA interference (RNAi). Here we show that CDK12 regulates heterochromatin dynamics in Drosophila chromosomes. Depletion of CDK12 induces the increased HP1a and H3K9me2 binding profile on the coding region of euchromatic genes, with the X chromosome being the most affected. These results are consistent with the polytene chromosome immunostaining pattern of HP1a and H3K9me2 after CDK12 knockdown in our initial cytological observations, which show that CDK12 depletion induce heterochromatin spreading on euchromatic arms, especially on the X chromosome. This study describes a novel role of the CDK12 complex in controlling the epigenetic transition between euchromatin and heterochromatin. Examination of the genome-wide H3K9me2 and HP1a binding profile in wildtype larvae (WT) and CDK12-depleted larvae (CDK12-KD). Examination of the genome-wide CDK12 binding profile in wildtype larvae (WT). Twelve independent immunoprecipitations were conducted for each antibody. Two biological replicates were performed.

2015-11-02 | E-GEOD-63011 | biostudies-arrayexpress

Targeting MYC dependency in ovarian cancer through inhibition of CDK7 and CDK12/13

Project description:High-grade serous ovarian cancer is characterized by extensive copy number alterations, among which the amplification of MYC oncogene occurs in nearly half of tumors. We demonstrate that ovarian cancer cells highly depend on MYC for maintaining their oncogenic growth, indicating MYC as a therapeutic target for this difficult-to-treat malignancy. However, targeting MYC directly has proven difficult. We screen small molecules targeting transcriptional and epigenetic regulation, and find that THZ1 –a chemical inhibiting CDK7, CDK12, and CDK13–markedly downregulates MYC. Notably, abolishing MYC expression cannot be achieved by targeting CDK7 alone, but require the combined inhibition of CDK7, CDK12, and CDK13. In all 11 independent patient derived xenografts models derived from heavily pre-treated ovarian cancer patients, administration of THZ1 induces significant tumor growth inhibition with concurrent abrogation of MYC expression. Our study indicates that targeting these transcriptional CDKs with agents such as THZ1 may be an effective approach for MYC-dependent ovarian malignancies.

2018-06-27 | GSE116282 | GEO

RNA-Seq of Drosophila melanogaster Cdk12-null mutants versus control

Project description:In a forward genetic screen, we have previously identified a null mutant of Cdk12 that results in alterations in actin dynamics, the axon initial segment and electrophysiology in Drosophila melanogaster. To decipher how Cdk12 may be having these effects, we extracted RNA from pooled Drosophila heads and compared Cdk12-null mutants to controls at the transcriptome level.

2023-01-01 | E-MTAB-12090 | biostudies-arrayexpress

RNA-seq analysis of control and ZC3H18-depleted ovarian cancer cells

Project description:We report the differential gene expression in control versus ZC3H18-depleted OVCAR-8 cells

2019-08-29 | GSE136533 | GEO