In Silico Transcription Factor Discovery via Bioinformatics Approach: Application on iPSC Reprogramming Resistant Genes
Author
Natalia Polouliakh
Editor
Firas Kobeissy and Ali Alawieh and Fadi A. Zaraket and Kevin Wang
Abstract
Transcription regulation plays an essential role in the development, complexity, and homeostasis of all organisms, as transcription is the first step in the universal pipeline of biological information flow from genome to proteome. Numerous motif-finding tools exist, and selecting the best analytical path is crucial for the right biological mechanism discovery. In this study, we demonstrate an analysis workflow to discover and characterize genes in which promoters have become an immediate target of iPSC reprogramming factors OCT4, SOX2, OCT4_SOX2, and NANOG in the course of reprogramming on human cells. A model of iPSC reprogramming transcription factor binding and reprogramming factor binding motif matrices established in this study will be useful for further analysis of iPSC and other cells.