Uncovering the mesendoderm gene regulatory network through multi-omic data integration

We report the ChIP-seq analysis of multiple Xenopus transcription factors binding. Also, we report loss-of-function transcriptomic analysis of Tcf7l1 by RNA-seq at different developmental stages. These newly generated datasets are analyzed using self-organizing maps, along with previously published Xenopus genomic data. Overall design: ChIP-seq was performed using antibodies against Xenopus tropicalis transcription factors (Mix1, Sia1, Smad1, Sox7, Vegt and Ventx2) where embryos were processed at different stages of early development. RNA-seq datasets were generated from uninjected embryos and Tcf7l1 morpholino injected embryos. These multi-omic datasets, along with literature curated ChIP-seq, RNA-seq and ATAC-seq datasets, were analyzed using Self-Organizing Maps to elucidate the gene regulatory network principles of early mesendoderm development.