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Series GSE165101 Query DataSets for GSE165101
Status Public on May 18, 2022
Title Unravelling the chromatin landscape and enhancer logic mediating spatiotemporal patterning of early cardiovascular progenitors [ATAC-seq]
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary The mammalian heart arises from various populations of Mesp1-expressing cardiovascular progenitors (CPs) that are specified during the early stages of gastrulation. Mesp1 acts as a master regulator of CP specification and differentiation. However, how Mesp1 regulates the chromatin landscape of nascent mesodermal cells to define the temporal and spatial patterning of the distinct populations of CP remains unknown. Here, by combining ChIP-seq, RNA-seq and ATAC-seq during mouse pluripotent stem cell differentiation, we defined the temporal remodelling of the chromatin landscape mediated by Mesp1. We identified different enhancers that are temporally regulated to erase the pluripotent state and specify the pools of CPs that mediate heart development. We found that Mesp1 acts as a pioneer transcription factor (TF) and identified Zic TFs as essential cofactors that regulate Mesp1 pioneer activity at key mesodermal enhancers, thereby regulating the chromatin remodelling and gene expression associated with the specification of the different populations of CPs in vivo. Our study identifies the dynamics of the chromatin landscape and enhancer remodelling associated with temporal patterning of early mesodermal cells into the distinct populations of CPs that mediate heart development.
Overall design assay for transposase-accessible chromatin using sequencing (ATAC-seq) on differentiating mouse pluripotent stem cells where the expression of Mesp1 is doxycycline-inducible
Contributor(s) Lin X, Swedlund B, Calonne E, Fuks F, Blanpain C
Citation(s) 35817961
Submission date Jan 19, 2021
Last update date Nov 29, 2022
Contact name Cedric Blanpain
Organization name Université Libre de Bruxelles (ULB)
Lab Laboratory of Stem Cells and Cancer
Street address Route de Lennik 808, Bat C, C6-126
City Brussels
State/province anderlecht
ZIP/Postal code 1070
Country Belgium
Platforms (3)
GPL18480 Illumina HiSeq 1500 (Mus musculus)
GPL19057 Illumina NextSeq 500 (Mus musculus)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (25)
GSM5026158 ATAC-seq-WT-0h-no-dox-rep1
GSM5026159 ATAC-seq-WT-0h-no-dox-rep2
GSM5026160 ATAC-seq-WT-12h-no-dox-rep1
This SubSeries is part of SuperSeries:
GSE165107 Unravelling the chromatin landscape and enhancer logic mediating spatiotemporal patterning of early cardiovascular progenitors
BioProject PRJNA693269
SRA SRP302364

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SOFT formatted family file(s) SOFTHelp
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Supplementary file Size Download File type/resource
GSE165101_RAW.tar 3.5 Gb (http)(custom) TAR (of BIGWIG, BW)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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