TY - JOUR T1 - A Holistic Analysis of the Intestinal Stem Cell Niche Network JF - bioRxiv DO - 10.1101/2019.12.12.871756 SP - 2019.12.12.871756 AU - Darrick M. Hansen AU - Paloma Ivon Meneses Giles AU - Xi C. He AU - Shiyuan Chen AU - Ariel Paulson AU - Christopher M. Dekaney AU - Jennifer Wang AU - Deqing Hu AU - Aparna Venkatraman AU - Woosook Kim AU - John Kaddis AU - Barbara J. Olack AU - James C.Y. Dunn AU - Calvin Kuo AU - Susan Henning AU - Alan M. Hanash AU - Courtney W. Houchen AU - John Lynch AU - Martin G. Martin AU - Joyce C. Niland AU - Matthias Stelzner AU - Melissa Wong AU - Timothy C. Wang AU - Jian Yu AU - Kelley Yan AU - Linheng Li Y1 - 2019/01/01 UR - http://biorxiv.org/content/early/2019/12/12/2019.12.12.871756.abstract N2 - Although many studies into the intestinal stem cell (ISC) niche have been carried out, they have focused on the role of a single cell type or molecular signal. However, no holistic comparisons of the predominant cell types and signals present within the intestinal mucosa have been conducted to date. We utilize bulk RNA sequencing to profile 20 different mucosal cell types covering four major cell categories: epithelial, stromal, endothelial and immune. We further examined the stromal signaling environment using scRNAseq to provide a more comprehensive view of the signaling microenvironment within the intestinal mucosa. We identified the primary signals for the major ISC regulatory pathways and their respective cellular sources. Our analysis suggests that a ‘niche network’ exists, with no single cell type being responsible for ISC self-renewal, proliferation, or differentiation; rather, each cell type within the network carries out specific functions in a highly cooperative and coordinated manner. ER -