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Series GSE219007 Query DataSets for GSE219007
Status Public on May 31, 2023
Title The cholesterol transporter NPC1 is essential for epigenetic regulation and maturation of oligodendrocyte lineage cells ChIP-seq
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Cholesterol is required for oligodendrocyte maturation and CNS myelination. Here, we demonstrate an essential role for the intracellular cholesterol transporter NPC1 in these processes. NPC1 functions in late endosomes and lysosomes to efflux unesterified cholesterol, and its deficiency causes Niemann-Pick disease Type C, an autosomal recessive lysosomal disorder characterized by progressive neurodegeneration and early death. To identify cell types and pathways affected early in pathogenesis, we performed single nuclear RNA-seq on the forebrain of Npc1-/- mice at P16. This analysis uncovered striking transcriptional changes in the oligodendrocyte lineage during the period of developmental myelination, accompanied by diminished maturation of myelinating oligodendrocytes. Unexpectedly, we identified a significant upregulation of genes associated with neurogenesis and synapse formation in Npc1-/- oligodendrocyte lineage cells, reflecting diminished gene silencing by H3K27me3 and H3K9me3. Npc1-/- oligodendrocyte progenitor cells reproduced impaired maturation in vitro and this phenotype was rescued by treatment with GSK-J4, a small molecule inhibitor of H3K27 demethylases. This study sought to determine the genes being directly impacted by the epigenetic dysfunction at H3K27.
 
Overall design Chromatin immunoprecipitation DNA-sequencing (ChIP-seq) for the histone modifications H3K27me3 and H3K27ac in oligodendrocyte lineage cells isolated from mouse brain.
 
Contributor(s) Kunkel TJ, Lieberman AP
Citation(s) 37407594
Submission date Nov 29, 2022
Last update date Sep 01, 2023
Contact name Andrew Lieberman
Organization name University of Michigan
Department Pathology
Street address 1150 W Medical Center Drive
City Ann Arbor
State/province MI
ZIP/Postal code 48105
Country USA
 
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (4)
GSM6764929 WT mouse O4+ cells H3K27me3
GSM6764930 Npc1-/- mouse O4+ cells H3K27me3
GSM6764931 WT mouse O4+ cells H3K27ac
This SubSeries is part of SuperSeries:
GSE221610 The cholesterol transporter NPC1 is essential for epigenetic regulation and maturation of oligodendrocyte lineage cells
Relations
BioProject PRJNA906579

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Supplementary file Size Download File type/resource
GSE219007_RAW.tar 471.0 Mb (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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