Chromatin architecture reorganization during stem cell differentiation Open


Higher-order chromatin structure is emerging as an important regulator of gene expression. Although dynamic chromatin structures have been identified in the genome, the full scope of chromatin dynamics during mammalian development and lineage specification remains to be determined. By mapping genome-wide chromatin interactions in human embryonic stem (ES) cells and four human ES-cell-derived lineages, we uncover extensive chromatin reorganization during lineage specification. We observe that although self-associating chromatin domains are stable during differentiation, chromatin interactions both within and between domains change in a striking manner, altering 36% of active and inactive chromosomal compartments throughout the genome. By integrating chromatin interaction maps with haplotype-resolved epigenome and transcriptome data sets, we find widespread allelic bias in gene expression correlated with allele-biased chromatin states of linked promoters and distal enhancers. Our results therefore provide a global view of chromatin dynamics and a resource for studying long-range control of gene expression in distinct human cell lineages.

DOI: 10.1038/nature14222

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@article{Dixon2015ChromatinAR, title={Chromatin architecture reorganization during stem cell differentiation Open}, author={Jesse R. Dixon and Inkyung Jung and Siddarth Selvaraj and Yin Shen and Jessica E. Antosiewicz-Bourget and Ahyoung Lee and Zhen Ye and Audrey Kim and Nisha Rajagopal and Wei Xie and Yarui Diao and Jing Liang and Huimin Zhao and Victor V. Lobanenkov and Joseph R. Ecker and James A. Thomson and Bing Ren}, journal={Nature}, year={2015}, volume={518 7539}, pages={331-6} }