[HTML][HTML] Identification and analysis of murine pancreatic islet enhancers

BR Tennant, AG Robertson, M Kramer, L Li, X Zhang… - Diabetologia, 2013 - Springer
BR Tennant, AG Robertson, M Kramer, L Li, X Zhang, M Beach, N Thiessen, R Chiu…
Diabetologia, 2013Springer
Methods We combined H3K4me1-based nucleosome predictions with pancreatic and
duodenal homeobox 1 (PDX1), neurogenic differentiation 1 (NEUROD1), v-Maf
musculoaponeurotic fibrosarcoma oncogene family, protein A (MAFA) and forkhead box A2
(FOXA2) occupancy data to identify enhancers in mouse islets. Results We identified 22,223
putative enhancer loci in in vivo mouse islets. Our validation experiments suggest that nearly
half of these loci are active in regulating islet gene expression, with the remaining regions …
Methods
We combined H3K4me1-based nucleosome predictions with pancreatic and duodenal homeobox 1 (PDX1), neurogenic differentiation 1 (NEUROD1), v-Maf musculoaponeurotic fibrosarcoma oncogene family, protein A (MAFA) and forkhead box A2 (FOXA2) occupancy data to identify enhancers in mouse islets.
Results
We identified 22,223 putative enhancer loci in in vivo mouse islets. Our validation experiments suggest that nearly half of these loci are active in regulating islet gene expression, with the remaining regions probably poised for activity. We showed that these loci have at least nine developmental ontologies, and that islet enhancers predominately acquire H3K4me1 during differentiation. We next discriminated 1,799 enhancers unique to islets and showed that these islet-specific enhancers have reduced association with annotated genes, and identified a subset that are instead associated with novel islet-specific long non-coding RNAs (lncRNAs).
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