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Series GSE131060 Query DataSets for GSE131060
Status Public on Apr 08, 2020
Title The histone deacetylase complex MiDAC regulates a neurodevelopmental gene expression to control neurite outgrowth [RNA-Seq]
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Cell type diversity during neuro-ectodermal (NE) differentiation is achieved through selective activation and silencing of neurodevelopmental genes. Here, we show a key role for the histone deacetylase complex MiDAC during neuronal differentiation of mouse embryonic stem cells (mESCs) into NE. We demonstrate that MiDAC functions as a modulator of a neurodevelopmental gene expression program and binds to important regulators of neurite outgrowth. MiDAC mediates the removal of H4K20ac on the promoters and enhancers of pro-neural genes such as the axon guidance ligands Slit3 and Ntn1 while in parallel reducing H3K27ac on promoter-proximal and -distal elements of negative regulators of neurogenesis thereby upregulating and inhibiting gene expression, respectively. Furthermore, neurite outgrowth defects in MiDAC KO neurons can be rescued by restoring Slit3/Robo3-Ntn1/Unc5b signaling. Taken together, our work suggests a crucial role for MiDAC in regulating the secretome of the Slit3/Robo3-Ntn1/Unc5b signaling axes to ensure the proper integrity of neurite development.
Overall design RNA was isolated from 3 x 10e6 mESCs with the RNeasy Mini Kit (Qiagen, 74106) following the manufacturer’s instructions from each genotype in duplicate. Genotypes: WT, Dnttip1 KO1 (D1E6), Dnttip1 KO2 (D2A7), Elmsan1 KO1 (E2E8) and Elmsan1 KO2 (E2G7).
Contributor(s) Mondal B, Jin H, Kallappagoudar S, Sedkov Y, Martinez T, Sentmanat MF, Poet GJ, Li C, Fan Y, Pruett-Miller SM, Herz H
Citation(s) 32297854, 35820704
Submission date May 12, 2019
Last update date Aug 02, 2022
Contact name Hans-Martin Herz
Phone 901-595-2058
Organization name St. Jude Children's Research Hospital
Street address 262 Danny Thomas Place
City Memphis
State/province TN
ZIP/Postal code 38105-3678
Country USA
Platforms (1)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (10)
GSM3762871 WT_rep1
GSM3762872 WT_rep2
GSM3762873 Dnttip1KO1_D2A7_rep1
This SubSeries is part of SuperSeries:
GSE131062 The histone deacetylase complex MiDAC regulates a neurodevelopmental gene expression to control neurite outgrowth
BioProject PRJNA542515
SRA SRP198173

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Supplementary file Size Download File type/resource
GSE131060_MiDAC.RNAseq.FPKM_GEO.txt.gz 2.0 Mb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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