Dissecting the regulatory logic of specification and differentiation during vertebrate embryogenesis.

ABSTRACT: The interplay between transcription factors and chromatin accessibility regulates cell type diversification during vertebrate embryogenesis. To systematically decipher the gene regulatory logic guiding this process, we generated a single-cell multi-omics atlas of RNA expression and chromatin accessibility during early zebrafish embryogenesis. We developed a deep learning model to predict chromatin accessibility based on DNA sequence and found that a small number of transcription factors underlie cell-type-specific chromatin landscapes. While Nanog is well-established in promoting pluripotency, we discovered a new function in priming the enhancer accessibility of mesendodermal genes. In addition to the classical stepwise mode of differentiation, we describe instant differentiation, where pl

SUBMITTER: Liu J 

PROVIDER: S-EPMC11383055 | biostudies-literature | 2024 Aug

REPOSITORIES: biostudies-literature