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Series GSE240327 Query DataSets for GSE240327
Status Public on Apr 04, 2024
Title A set of Sox2-dependent OSN enhancers mediates the immediate response to neural induction and default neural differentiation of embryonic stem cells
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary Sox2 is a transcription factor involved in the regulatory network maintaining the pluripotency of embryonic stem cells in culture as well as in early embryos. In addition, Sox2 plays a pivotal role in neural stem cell formation and neurogenesis. How Sox2 can serve both processes has remained elusive. Here we identified a set of Sox2-dependent neural associated enhancers (SONAE) activated immediately following neural induction and required in neural gene activation. SONAE are a distinct subgroup (1898) of 8531 Oct4/Sox2/Nanog (OSN) bound enhancers, characterized by enhanced Sox2 binding and chromatin accessibility. SONAE activation is triggered by neural induction via Retinoic Acid treatment of wild type cells and is antagonized by mesodermal transcription factors repressing Sox2 following mesoderm induction. Neural differentiation is also set off by default in Smad4 ablated cells resistant to mesodermal induction. Our data provide mechanistic insight into the regulation of early neural versus mesodermal induction in ESCs and embryos.
Overall design Transcriptomes (RNA-Seq) and chromatin accessibility (ATAC-Seq) from non-differentiated or neural differentiated (RA) Sox2 wild-type (DMSO) and Sox2 knock-out (dTAG13) mouse ESCs.
Contributor(s) Tsaytler P, Blaess G, Scholze-Wittler M, Koch F, Herrmann BG
Citation(s) 38579708
Submission date Aug 08, 2023
Last update date Jun 05, 2024
Contact name Pavel Tsaytler
Organization name MPI Molecular Genetics
Street address Ihnestrasse 63-73
City Berlin
ZIP/Postal code 14195
Country Germany
Platforms (2)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
GPL30172 NextSeq 2000 (Mus musculus)
Samples (40)
GSM7696207 ATAC_DMSO_12h_rep1
GSM7696208 ATAC_DMSO_12h_rep2
GSM7696209 ATAC_DMSO_24h_rep1
BioProject PRJNA1003385

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Supplementary file Size Download File type/resource
GSE240327_RAW.tar 15.4 Gb (http)(custom) TAR (of BW)
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Raw data are available in SRA
Processed data provided as supplementary file

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