Year: 2020
Type: article
Abstract: . Here, as part of the mouse Encyclopedia of DNA Elements (ENCODE) project, we profiled 168 methylomes from 12 mouse tissues or organs at 9 developmental stages from embryogenesis to adulthood. We identified 1,808,810 genomic regions that showed variations in CG methylation by comparing the methylomes of different tissues or organs from different developmental stages. These DNA elements predominantly lose CG methylation during fetal development, whereas the trend is reversed after birth. During late stages of fetal development, non-CG methylation accumulated within the bodies of key developmental transcription factor genes, coinciding with their transcriptional repression. Integration of genome-wide DNA methylation, histone modification and chromatin accessibility data enabled us to predict 461,141 putative developmental tissue-specific enhancers, the human orthologues of which were enriched for disease-associated genetic variants. These spatiotemporal epigenome maps provide a resource for studies of gene regulation during tissue or organ progression, and a starting point for investigating regulatory elements that are involved in human developmental disorders.
Source: Nature
Institutions: Salk Institute for Biological Studies, University of California San Diego, Ludwig Cancer Research, Lawrence Berkeley National Laboratory, California Institute of Technology, University of California, Merced, Joint Genome Institute, University of California, Berkeley, Howard Hughes Medical Institute
Language: English
Subfield: Molecular Biology
Domain: Life Sciences
Open Access status: hybrid
Estimated APC paid: $12,690
Funders: National Science Foundation, Howard Hughes Medical Institute, U.S. Department of Energy, A.P. Giannini Foundation, Giannini Foundation of Agricultural Economics, National Institutes of Health, National Heart, Lung, and Blood Institute, National Human Genome Research Institute, National Cancer Institute, National Institute of General Medical Sciences, Lawrence Berkeley National Laboratory
Awards: G1026919566, G1079818582, G1143651532, G1286236842, Center for Mammalian Regulatory Genomics, G1742171491, G1863003419, G2206590661, G2343817717, G3083819904, G3226045097, Genome-Wide Resources for Transcriptional Enhancers Active in the Human Heart, XSEDE 2.0: Integrating, Enabling and Enhancing National Cyberinfrastructure with Expanding Community Involvement, G3812616897, G382641700, G4173286955, G42916606, Regulation of Cardiac Development in Health and Disease, G465867758, G4982041051, G6608191692, G6806689448, G680976502, G7021921917, G713150642, G7354628648, G9000012564, G9000026246, G9000215093, Cancer Center Support Grant (CCSG), Functionally Assessing Transcriptional Enhancers In Vivo, G969889393
OpenAlex ID: W3045703643