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| Status |
Public on Mar 01, 2021 |
| Title |
ERbeta influencing p65 cistromes in colon cancer cells |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Inflammation is involved in both initiation and promotion of colorectal cancer (CRC), and patients with inflammatory bowel disease (IBC) have increased risk of developing CRC. Tumor necrosis factor alpha (TNFα) is a cytokine secreted by e.g. macrophages, and this signaling is deregulated in IBD and CRC. TNFα activates the pro-survival transcription factor complex NFκB, which is composed of several subunits including p65 (RELA). We recently characterized the genome-wide transcriptional impact by TNFα in two CRC cell lines, but how p65 binds the chromatin, its cistrome, in colorectal cancer cells has not been explored. We here used p65 chromatin immunoprecipitation followed by sequencing (ChIP-Seq) in HT29 and SW480 cells, and correlated with the transcriptomic impact of TNFα. Further, estrogen receptor beta (ERβ) has anti-inflammatory and anti-tumorigenic effects in colon cells and interacts with NFκB main targets. We have shown that ERβ impacts TNFα signaling in CRC cells and ERβ impacts the P65 cistrome.
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| Overall design |
ChIP-Seq was performed in CRC engineered cell lines re-expressing ERβ and mock (emply vector without ERβ).Each ChIP was performed three times. For further analysis, we focused on sites present in at least two out of three replicates.
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| Contributor(s) |
Indukuri R, Williams C |
| Citation missing |
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| |
| Submission date |
Nov 04, 2020 |
| Last update date |
Mar 03, 2021 |
| Contact name |
Rajitha Indukuri |
| E-mail(s) |
[email protected]
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| Phone |
0760285999
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| Organization name |
Scilifelab
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| Street address |
Tomtebodavägen 23a, Solna
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| City |
Stockholm |
| State/province |
Sweden |
| ZIP/Postal code |
17165 |
| Country |
Sweden |
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| Platforms (1) |
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| Samples (16)
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| Relations |
| BioProject |
PRJNA674648 |
| SRA |
SRP291186 |
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