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| Status |
Public on Feb 07, 2018 |
| Title |
RNA-seq and ChIP-seq analysis of BMI1 or RING1B-silenced prostate cancer cells C4-2 |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
Purpose: Study of the role of BMI1 dependent and indpendent of PRC1 in castration-resistant prostate cancer(CRPC) Method: The expression of BMI1 or RING1B was silenced by 2 independent siRNA strands targeted at BMI1 or RING1B in C4-2 cells, scramble RNA as control. mRNA profiles and genome-wide chromatin-state maps were generated by deep sequencing. AR, BMI1 and IgG ChIP was conducted in C4-2 cells. Results: AR-induced genes were significantly down regulated by BMI1 knockdown but not RING1B. higher expression levels of BMI1 activated genes (those downregulated by BMI1 knockdown) were significantly associated with poorer disease-free and poorer overall survival.
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| Overall design |
Expression profiling by RNA-seq, profiling of BMI1 and RNF2 (wildtype and knockdown) from C4-2 cell lines. DNA was purified from chromatin immunoprecipitates for AR, BMI1 or IgG using the phenol/chloroform extraction. IgG was used as a negative control for ChIP. Then, DNA was amplified by quantitative PCR and normalized to input.
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| Contributor(s) |
Zhu S, Zhao D, Chen K, Cao Q |
| Citation(s) |
29402932 |
| Submission date |
Apr 14, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Dongyu Zhao |
| E-mail(s) |
zhaodyemail@gmail.com
|
| Organization name |
Houston Methodist Research Institute
|
| Street address |
6670 Bertner Ave
|
| City |
Houston |
| State/province |
TX |
| ZIP/Postal code |
77030 |
| Country |
USA |
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| Platforms (1) |
| GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
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| Samples (9)
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| Relations |
| BioProject |
PRJNA382981 |
| SRA |
SRP103945 |
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