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Series GSE227886 Query DataSets for GSE227886
Status Public on Dec 05, 2023
Title Transcription Factor Co-Expression Mediates Lineage Priming for Embryonic and Extra-Embryonic Differentiation [CUT&RUN]
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary In early mammalian development, cleavage stage blastomeres and cells of the inner cell mass (ICM) of the blastocyst co-express embryonic and extra-embryonic transcriptional determinants. Using a double protein-based reporter we identify embryonic stem cells (ESC) that co-express the extra-embryonic factor GATA6 alongside the embryonic factor SOX2 in specific conditions. Based on single cell transcriptomics we find these population resemble unsegregated ICM, exhibiting enhanced differentiation potential for endoderm while maintaining epiblast competence and suggesting they represent an ideal model to determine how GATA6 and SOX2 influence each other's DNA binding. To relate this binding to future fate, we describe a complete enhancer set in both ESCs and naïve extraembryonic endoderm stem cells and ask whether SOX2 and GATA6 recognize these elements in ICM-like ESC sub-population. Both factors support cooperative recognition in these lineages, with GATA6 bound alongside SOX2 on a fraction of pluripotency enhancers and SOX2 alongside GATA6 more extensively on endoderm enhancers. Our findings suggest that cooperative binding between these antagonistic factors both supports self-renewal and prepares progenitor cells for later differentiation
 
Overall design 2 biological replicates for all conditions (B9 and B12) of the double reporter SGGC. Conditions tested: 2iLIF, NACL, KOSR SOX2 single positive, KOSR DP, nEnd. Antibodies used: H3K4me1, H3K27ac, SOX2, GATA6
 
Contributor(s) Redó Riveiro A, Al-Mousawi J, Linneberg-Agerholm M, Proks M, Perera Perez M, Proks M, Brickman JM
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Submission date Mar 21, 2023
Last update date Dec 06, 2023
Contact name Josh M Brickman
E-mail(s) joshua.brickman@sund.ku.dk
Organization name Copenhagen University
Department reNEW
Lab Brickman
Street address 3B Blegdamsvej
City Copenhagen
ZIP/Postal code 2200
Country Denmark
 
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (53)
GSM7110296 2i_B9_H3K27ac
GSM7110297 2i_B9_IgG_S17
GSM7110298 2i_B9_Sox2_S19
This SubSeries is part of SuperSeries:
GSE227889 Transcription Factor Co-Expression Mediates Lineage Priming for Embryonic and Extra-Embryonic Differentiation
Relations
BioProject PRJNA947237

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE227886_RAW.tar 8.9 Gb (http)(custom) TAR (of BED, BW)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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