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| Status |
Public on Aug 01, 2019 |
| Title |
Genome-wide maps of chromatin state in PC3 cells |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
To integrate genome-wide occupancy of canonical and ncPRC1 with control of gene expression, we performed ChIPseq analysis for RNF2 (cPRC1 and ncPRC1), BMI1 and PHC2 (cPRC1), and KDM2B (ncPRC1.1) and integrated the results with the known occupancy data for the transcriptional repression mark H3K27me3 and the activation mark H3K4me3 in PC3 cells. Finally, we show that the capacity of PRC1 is to positively control the gene expression associated with the acquisition of mesenchymal and stem-like traits and progression to metastasis in PC3.
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| Overall design |
Examination of 5 PRC1 subunits with histone H2AK119Ub modifications in PC3 cells. BioProject accession - PRJNA535445. SRA Study accession are as follows: 1_Bmi1 SRR8955278 ; 2_Rnf2 SRR8955279 ; 3_Input SRR8955280 ; 4_Pcgf1 SRR8955281 ; 5_Phc2 SRR8955282 ; 6_Kdm2b SRR8955283 ; 1_ubH2A SRR8980091 ; 2_ubH2A SRR8980090
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| Contributor(s) |
Rumandla A, Wang Y |
| Citation(s) |
31327655 |
| BioProject |
PRJNA535445 |
| Submission date |
May 28, 2019 |
| Last update date |
Oct 31, 2019 |
| Contact name |
Filippo Giancotti |
| E-mail(s) |
fg2532@cumc.columbia.edu
|
| Organization name |
UT MD Anderson Cancer Center
|
| Department |
Cancer Biology
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| Lab |
Dr. Giancotti Lab
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| Street address |
1881 East Road
|
| City |
Houston |
| State/province |
Texas |
| ZIP/Postal code |
77054 |
| Country |
USA |
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| Platforms (2) |
| GPL20301 |
Illumina HiSeq 4000 (Homo sapiens) |
| GPL21290 |
Illumina HiSeq 3000 (Homo sapiens) |
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| Samples (8)
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| This SubSeries is part of SuperSeries: |
| GSE131830 |
Transcriptomic data and Genome-wide maps of chromatin state in prostate cancer |
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| Relations |
| SRA |
SRP193842 |
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