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Series GSE81815 Query DataSets for GSE81815
Status Public on Apr 30, 2019
Title Pioneering function of Isl1 in the epigenetic control of cardiomyocyte cell fate [CPC_ATAC-seq]
Organism Mus musculus
Experiment type Other
Summary Generation of widely differing and specialized cell types from a single totipotent zygote involves large-scale transcriptional changes and chromatin reorganization. Pioneer transcription factors play key roles in programming the epigenome and facilitating recruitment of additional regulatory factors during successive cell lineage specification and differentiation steps. Here we show that Isl1 acts as a pioneer factor driving cardiomyocyte lineage commitment by shaping the chromatin landscape of cardiac progenitor cells. Using an Isl1 hypomorphic mouse line which shows congenital heart defects, genome-wide profiling of Isl1 binding together with RNA- and ATAC-sequencing of cardiac progenitor cells and their derivatives, we uncover a regulatory network downstream of Isl1 that orchestrates cardiogenesis. Mechanistically, we show that Isl1 binds to compacted chromatin and works in concert with the Brg1-Baf60c-based SWI/SNF complex to promote permissive cardiac lineage-specific alterations in the chromatin landscape not only of genes with critical functions in cardiac progenitor cells, but also of cardiomyocyte structural genes that are highly expressed when Isl1 itself is no longer present. Thus, the Isl1/Brg1-Baf60c complex plays a crucial role in orchestrating proper cardiogenesis and in establishing epigenetic memory of cardiomyocyte fate commitment
 
Overall design Genome wide ATAC-sequencing profiles in cardiac progenitors derived from control and Isl1 knockdown.
 
Contributor(s) Cordero J, Gao R, Dobreva G
Citation(s) 31024170
Submission date May 24, 2016
Last update date May 15, 2019
Contact name Gergana Dobreva
E-mail(s) Gergana.Dobreva@medma.uni-heidelberg.de
Organization name Medical Faculty Mannheim/University of Heidelberg
Department Cardiovascular Genomics and Epigenomics
Lab AG Dobreva
Street address Ludolf-Krehl-Str. 7-11
City Mannheim
State/province Baden Württemberg
ZIP/Postal code 68167
Country Germany
 
Platforms (1)
GPL18635 Ion Torrent Proton (Mus musculus)
Samples (2)
GSM2176273 Day5_CPC_ATAC-seq-Rep1
GSM2176274 Day5_CPC_ATAC-seq-Rep2
This SubSeries is part of SuperSeries:
GSE80383 Pioneering function of Isl1 in the epigenetic control of cardiomyocyte cell fate
Relations
BioProject PRJNA322626
SRA SRP075644

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Supplementary file Size Download File type/resource
GSE81815_Day5_CPC_Isl1_control_ATAC_Seq_merge.bw 207.1 Mb (ftp)(http) BW
GSE81815_Day5_CPC_control_ATAC_seq_peaks_annot.bed.gz 443.0 Kb (ftp)(http) BED
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Raw data are available in SRA
Processed data are available on Series record

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