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Series GSE131829 Query DataSets for GSE131829
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
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.
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
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
Organization name UT MD Anderson Cancer Center
Department Cancer Biology
Lab Dr. Giancotti Lab
Street address 1881 East Road
City Houston
State/province Texas
ZIP/Postal code 77054
Country USA
Platforms (2)
GPL20301 Illumina HiSeq 4000 (Homo sapiens)
GPL21290 Illumina HiSeq 3000 (Homo sapiens)
Samples (8)
GSM3820349 ChIP-Seq_PC3_BMI1
GSM3820350 ChIP-Seq_PC3_RNF2
GSM3820351 ChIP-Seq_PC3_Input
This SubSeries is part of SuperSeries:
GSE131830 Transcriptomic data and Genome-wide maps of chromatin state in prostate cancer
SRA SRP193842

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
GSE131829_RAW.tar 331.9 Mb (http)(custom) TAR (of BEDGRAPH)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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