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| Status |
Public on Aug 28, 2015 |
| Title |
HNF4α and TCF4 (TCF7L2) ChIPseq in Tet-On HCT116 inducible cell lines that express either the human HNF4α2 or HNF4α8 under the control of doxycycline (DOX) [ChIP-Seq] |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Purpose: Aim of the study is to determine how many of the dysregulated genes in the RNAseq are direct targets of (P1) HNF4α2 and (P2) HNF4α8 and examine HNF4α and TCF4 binding in vivo. We performed ChIPseq on TCF4 in the absense or presence of DOX in the Tet-On inducible HCT116 HNF4α2 and HNF4α8 lines, and ChIPseq for HNF4α (a445 Ab) in the presence of DOX. Methods: HNF4α2 and HNF4α8 lines were induced with 0.3 μg/mL DOX for 24 hours. Samples were generated by deep sequencing, using the NEXTflex ChIPseq. Result: There were more HNF4α2 peaks than HNF4α8 peaks, with some common peaks bound by HNF4α2 and HNF4α8. Binding patterns were observed between HNF4α and TCF4. Conclusion: HNF4α2 can displace TCF4 better than HNF4α8 on AP-1 bound sites.
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| Overall design |
Tet-On inducible HCT116 cell (HNF4α2 and HNF4α8) lines, treated with (0.3 μg/mL) or without DOX for 24 hours, were 50bp single-end sequenced using Illumina-compatible-NEXTflex ChIP kit (Bioo Scientific).
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| Contributor(s) |
Dhahbi JM, Sladek FM |
| Citation missing |
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| |
| Submission date |
Oct 31, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
joseph M dhahbi |
| E-mail(s) |
joseph.dhahbi@cnsu.edu
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| Phone |
9166867891
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| Organization name |
California Northstate University College of Medicine
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| Department |
Medical Education
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| Lab |
Biochemistry
|
| Street address |
9700 West Taron Drive
|
| City |
Elk Grove |
| State/province |
ca |
| ZIP/Postal code |
95757 |
| Country |
USA |
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| Platforms (1) |
| GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
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| Samples (15)
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| This SubSeries is part of SuperSeries: |
| GSE62891 |
Genome-wide expression profile of the Tet-On HCT116 inducible cell line that express either the human HNF4α2 or HNF4α8 under control of Doxycycline (DOX) |
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| Relations |
| BioProject |
PRJNA265991 |
| SRA |
SRP049435 |
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