Pluripotency is characterized by the capacity to self-renew and differentiate into all cell types. This state relies on both extrinsic factors, such as leukemia inhibitory factor and bone morphogenetic protein, and intrinsic factors, including pluripotent transcription factors. While the role of pluripotent transcription factors in stem cell maintenance is well understood, their functions beyond pluripotency remain unclear. In this study, we focused on NANOG, a core member of the pluripotency network, and investigated its roles in two different models of differentiation: the transition from the naive to the primed pluripotent state and neuroectodermal differentiation.
Our questions were:
- What is Nanog specific role during differentiation
- What is responsible for the possible changing role of Nanog
Here we have combined multi omics datasets to answer our questions.
- RNA-Seq gse138818
- ChIP-Seq gse71932
- ATAC-Seq E-MTAB-7207
To see if all the samples are appropriate for downstream analysis we perform some transformation using distance matrix and pca.