Unknown,Transcriptomics,Genomics,Proteomics

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EP300 genomic binding analysis in MCF7 cells with E-cadherin inhibition using ChIP-seq

ABSTRACT: This experiment examines the genomic binding of EP300 in MCF7 breast cancer cells after E-cadherin inhibition. Using ChIP-seq, we identified EP300 binding sites in control (cAb-MCF7) and E-cadherin-inhibited (nAb-MCF7) cells. The goal was to understand how EP300's chromatin binding is altered and its role in regulating genes involved in epithelial-mesenchymal transition (EMT) and pluripotency. The workflow included ChIP with EP300 antibodies, sequencing, and data analysis to identify differential binding regions associated with key biological processes.

INSTRUMENT(S): Illumina HiSeq 2500

ORGANISM(S): Homo sapiens

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PROVIDER: E-MTAB-15109 | biostudies-arrayexpress |

SECONDARY ACCESSION(S): ERP172206

REPOSITORIES: biostudies-arrayexpress

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Project description:Healthy placental development is essential for reproductive success; failure of the feto-maternal interface results in preeclampsia and intrauterine growth retardation. We found that grainyhead-like 2 (GRHL2), a CP2-type transcription factor, is highly expressed in chorionic trophoblast cells, including basal chorionic trophoblast (BCT) cells located at the chorioallantoic interface in murine placentas. Placentas from Grhl2-deficient mouse embryos displayed defects in BCT cell polarity and basement membrane integrity at the chorioallantoic interface, as well as a severe disruption of labyrinth branchingmorphogenesis.Selective Grhl2 inactivation only in epiblastderived cells rescued all placental defects but phenocopied intraembryonic defects observed in global Grhl2 deficiency, implying the importance of Grhl2 activity in trophectoderm-derived cells. ChIPseq identified 5282 GRHL2 binding sites in placental tissue. By integrating these data with placental gene expression profiles, we identified direct and indirect Grhl2 targets and found a marked enrichment of GRHL2 binding adjacent to genes downregulated in Grhl2−/− placentas, which encoded known regulators of placental development and epithelial morphogenesis. These genes included that encoding the serine protease inhibitor Kunitz type 1 (Spint1), which regulates BCT cell integrity and labyrinth formation. In human placenta, we found that human orthologs of murine GRHL2 and its targets displayed co-regulation and were expressed in trophoblast cells in a similar domain as in mouse placenta. Our data indicate that a conserved Grhl2-coordinated gene network controls trophoblast branching morphogenesis, thereby facilitating development of the site of feto-maternal exchange. This might have implications for syndromes related to placental dysfunction. In vivo genome-wide examination of binding sites of the transcription factor GRHL2 by ChIP-seq using wild-type murine E17.5 placenta tissue. Two samples in total: one GRHL2 ChIP sample and one IgG ChIP sample using wild-type placentas tissue as antibody control.

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EP300 genomic binding analysis in MCF7 cells with E-cadherin inhibition using ChIP-seq

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