 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Oct 28, 2020 |
| Title |
H3K27ac and BRD4-binding regions in a clear cell renal cell carcinoma cell line, OS-RC-2 |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
Advanced clear cell renal cell carcinoma (ccRCC) frequently causes systemic inflammation. Here, we identified the functional role and regulatory mechanism of inflammation driven by advanced ccRCC cells. The inflammatory nature of advanced ccRCC was recapitulated in a preclinical model of ccRCC. Amplification of cancer cell-intrinsic inflammation during ccRCC progression triggered neutrophil-dependent lung metastasis. Massive expression of inflammation-related genes was transcriptionally activated by epigenetic remodelling through mechanisms such as DNA demethylation and super-enhancer formation. Bromodomain and extra-terminal motif inhibitor (BETi) synchronously suppressed C–X–C-type chemokines in ccRCC cells and decreased neutrophil-dependent lung metastasis. Overall, our findings shed insight into the nature of inflammatory ccRCC, which triggers metastatic cascades, and suggest a potential therapeutic strategy.
|
| |
|
| Overall design |
H3K27ac and BRD4 ChIP-seq analysis was performed with clear cell renal cell carcinoma cell lines, OS-RC-2 and its derivatives.
|
| |
|
| Contributor(s) |
Nishida J, Momoi Y, Tamura Y, Takahashi K, Koinuma D, Miyazono K, Ehata S |
| Citation(s) |
32203421 |
| |
| Submission date |
May 13, 2019 |
| Last update date |
Oct 28, 2020 |
| Contact name |
Shogo Ehata |
| E-mail(s) |
ehata-jun@umin.ac.jp
|
| Organization name |
The University of Tokyo
|
| Department |
Graduate School of Medicine
|
| Lab |
Deaprtment of Molecular Pathology
|
| Street address |
Hongo 7-3-1, Bunkyo-ku
|
| City |
Tokyo |
| ZIP/Postal code |
113-0033 |
| Country |
Japan |
| |
|
| Platforms (1) |
| GPL17303 |
Ion Torrent Proton (Homo sapiens) |
|
| Samples (16)
|
| GSM3764594 |
H3K27ac binding region in OSPa, replicate 1 |
| GSM3764595 |
H3K27ac binding region in OSPa, replicate 2 |
| GSM3764596 |
H3K27ac binding region in OS5K #1, replicate 1 |
| GSM3764597 |
H3K27ac binding region in OS5K #1, replicate 2 |
| GSM3764598 |
H3K27ac binding region in OS5K #2, replicate 1 |
| GSM3764599 |
H3K27ac binding region in OS5K #2, replicate 2 |
| GSM3764600 |
H3K27ac binding region in OS5K #3, replicate 1 |
| GSM3764601 |
H3K27ac binding region in OS5K #3, replicate 2 |
| GSM3764602 |
BRD4 binding region in OSPa, replicate 1 |
| GSM3764603 |
BRD4 binding region in OSPa, replicate 2 |
| GSM3764604 |
BRD4 binding region in OS5K #3, replicate 1 |
| GSM3764605 |
BRD4 binding region in OS5K #3, replicate 2 |
| GSM3764606 |
BRD4 binding region in JQ1-treated OS5K #3, replicate 1 |
| GSM3764607 |
BRD4 binding region in JQ1-treated OS5K #3, replicate 2 |
| GSM3764608 |
Input genomic DNA of OSPa |
| GSM3764609 |
Input genomic DNA of OS5K #3 |
|
| Relations |
| BioProject |
PRJNA542708 |
| SRA |
SRP198302 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE131139_H3K27ac_ChIPseq_OS5K_1_SE.bed.gz |
9.1 Kb |
(ftp)(http) |
BED |
| GSE131139_H3K27ac_ChIPseq_OS5K_1_TE.bed.gz |
487.9 Kb |
(ftp)(http) |
BED |
| GSE131139_H3K27ac_ChIPseq_OS5K_2_SE.bed.gz |
7.6 Kb |
(ftp)(http) |
BED |
| GSE131139_H3K27ac_ChIPseq_OS5K_2_TE.bed.gz |
501.9 Kb |
(ftp)(http) |
BED |
| GSE131139_H3K27ac_ChIPseq_OS5K_3_SE.bed.gz |
7.1 Kb |
(ftp)(http) |
BED |
| GSE131139_H3K27ac_ChIPseq_OS5K_3_TE.bed.gz |
523.4 Kb |
(ftp)(http) |
BED |
| GSE131139_H3K27ac_ChIPseq_OSPa_SE.bed.gz |
8.5 Kb |
(ftp)(http) |
BED |
| GSE131139_H3K27ac_ChIPseq_OSPa_TE.bed.gz |
307.2 Kb |
(ftp)(http) |
BED |
| GSE131139_RAW.tar |
767.9 Mb |
(http)(custom) |
TAR (of BW) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
| Processed data are available on Series record |
|
|
|
|
 |
Less...
More...