GSE62890
HNF4a and TCF4 (TCF7L2) ChIPseq in Tet-On HCT116 inducible cell lines that express either the human HNF4a2 or HNF4a8 under the control of doxycycline (DOX) [ChIP-Seq]
Purpose: Aim of the study is to determine how many of the dysregulated genes in the RNAseq are direct targets of (P1) HNF4a2 and (P2) HNF4a8 and examine HNF4a and TCF4 binding in vivo. We performed ChIPseq on TCF4 in the absense or presence of DOX in the Tet-On inducible HCT116 HNF4a2 and HNF4a8 lines, and ChIPseq for HNF4a (a445 Ab) in the presence of DOX.  Methods: HNF4a2 and HNF4a8 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 HNF4a2 peaks than HNF4a8 peaks, with some common peaks bound by HNF4a2 and HNF4a8. Binding patterns were observed between HNF4a and TCF4. Conclusion: HNF4a2 can displace TCF4 better than HNF4a8 on AP-1 bound sites. Overall design: Tet-On inducible HCT116 cell (HNF4a2 and HNF4a8) 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).