Document Detail


Regulatory network decoded from epigenomes of surface ectoderm-derived cell types.
MedLine Citation:
PMID:  25421844     Owner:  NLM     Status:  In-Data-Review    
Abstract/OtherAbstract:
Developmental history shapes the epigenome and biological function of differentiated cells. Epigenomic patterns have been broadly attributed to the three embryonic germ layers. Here we investigate how developmental origin influences epigenomes. We compare key epigenomes of cell types derived from surface ectoderm (SE), including keratinocytes and breast luminal and myoepithelial cells, against neural crest-derived melanocytes and mesoderm-derived dermal fibroblasts, to identify SE differentially methylated regions (SE-DMRs). DNA methylomes of neonatal keratinocytes share many more DMRs with adult breast luminal and myoepithelial cells than with melanocytes and fibroblasts from the same neonatal skin. This suggests that SE origin contributes to DNA methylation patterning, while shared skin tissue environment has limited effect on epidermal keratinocytes. Hypomethylated SE-DMRs are in proximity to genes with SE relevant functions. They are also enriched for enhancer- and promoter-associated histone modifications in SE-derived cells, and for binding motifs of transcription factors important in keratinocyte and mammary gland biology. Thus, epigenomic analysis of cell types with common developmental origin reveals an epigenetic signature that underlies a shared gene regulatory network.
Authors:
Rebecca F Lowdon; Bo Zhang; Misha Bilenky; Thea Mauro; Daofeng Li; Philippe Gascard; Mahvash Sigaroudinia; Peggy J Farnham; Boris C Bastian; Thea D Tlsty; Marco A Marra; Martin Hirst; Joseph F Costello; Ting Wang; Jeffrey B Cheng
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Publication Detail:
Type:  Journal Article     Date:  2014-11-25
Journal Detail:
Title:  Nature communications     Volume:  5     ISSN:  2041-1723     ISO Abbreviation:  Nat Commun     Publication Date:  2014  
Date Detail:
Created Date:  2014-11-25     Completed Date:  -     Revised Date:  -    
Medline Journal Info:
Nlm Unique ID:  101528555     Medline TA:  Nat Commun     Country:  England    
Other Details:
Languages:  eng     Pagination:  5442     Citation Subset:  IM    
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