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| Status |
Public on Jul 06, 2023 |
| Title |
Dysfunction of 5-methylcytosine oxidases and the Polycomb protein RYBP leads to widespread DNA hypermethylation and cell transformation [ChIP-seq] |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
We assessed the levels of the PRC1 Polycomb mark, RYBP, H2AK119Ub1, and the PRC2 Polycomb mark, H3K27me3, considering the extensive crosstalk between PRC1 and PRC2 activities.
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| Overall design |
Chromatin immunoprecipitation sequencing (ChIP-seq) for RYBP, H2AK119ub1 and H3K27me3 in HBEC3 defective cell (Control cells, RYBP KO, YAF2 KO, RYBP/YAF2 DKO).
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| Web link |
https://aacrjournals.org/cancerres/article/83/15/2480/728088/Deficiency-of-the-Polycomb-Protein-RYBP-and-TET
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| Contributor(s) |
Cui W, Huang Z, Pfeifer G |
| Citation(s) |
37272752 |
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| Submission date |
Jul 20, 2022 |
| Last update date |
Oct 05, 2023 |
| Contact name |
Gerd Pfeifer |
| E-mail(s) |
gerd.pfeifer@vai.org
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| Organization name |
Van Andel Research Institute
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| Street address |
333 Bostwick Ave. NE
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| City |
Grand Rapids |
| State/province |
MI |
| ZIP/Postal code |
49503 |
| Country |
USA |
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| Platforms (1) |
| GPL18573 |
Illumina NextSeq 500 (Homo sapiens) |
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| Samples (27)
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| GSM6364270 |
HBEC3 cells, Scr3, RYBP |
| GSM6364271 |
HBEC3 cells, RKO1, RYBP |
| GSM6364272 |
HBEC3 cells, RKO2, RYBP |
| GSM6364273 |
HBEC3 cells, RKO3, RYBP |
| GSM6364274 |
HBEC3 cells, Input, H2AK119ub1 |
| GSM6364275 |
HBEC3 cells, WT, H2AK119ub1 |
| GSM6364276 |
HBEC3 cells, EmpV, H2AK119ub1 |
| GSM6364277 |
HBEC3 cells, Scr3, H2AK119ub1 |
| GSM6364278 |
HBEC3 cells, RKO1, H2AK119ub1 |
| GSM6364279 |
HBEC3 cells, RKO2, H2AK119ub1 |
| GSM6364280 |
HBEC3 cells, YKO1, H2AK119ub1 |
| GSM6364281 |
HBEC3 cells, YKO2, H2AK119ub1 |
| GSM6364282 |
HBEC3 cells, R/Y DKO1, H2AK119ub1 |
| GSM6364283 |
HBEC3 cells, R/Y DKO2, H2AK119ub1 |
| GSM6364284 |
HBEC3 cells, Input, H3K27me3 |
| GSM6364285 |
HBEC3 cells, WT, H3K27me3 |
| GSM6364286 |
HBEC3 cells, EmpV, H3K27me3 |
| GSM6364287 |
HBEC3 cells, Scr3, H3K27me3 |
| GSM6364288 |
HBEC3 cells, RKO1, H3K27me3 |
| GSM6364289 |
HBEC3 cells, RKO2, H3K27me3 |
| GSM6364290 |
HBEC3 cells, YKO1, H3K27me3 |
| GSM6364291 |
HBEC3 cells, YKO2, H3K27me3 |
| GSM6364292 |
HBEC3 cells, R/Y DKO1, H3K27me3 |
| GSM6364293 |
HBEC3 cells, R/Y DKO2, H3K27me3 |
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| This SubSeries is part of SuperSeries: |
| GSE208689 |
Dysfunction of 5-methylcytosine oxidases and the Polycomb protein RYBP leads to widespread DNA hypermethylation and cell transformation |
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| Relations |
| BioProject |
PRJNA860622 |
| SRA |
SRP387318 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE208687_RAW.tar |
12.8 Gb |
(http)(custom) |
TAR (of BW) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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