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Series GSE228044 Query DataSets for GSE228044
Status Public on Sep 22, 2023
Title Differential usage of DNA modifications in neurons, astrocytes and microglia [WGoxBS]
Organism Mus musculus
Experiment type Methylation profiling by high throughput sequencing
Summary Cellular identity is determined, in part, by cell type-specific epigenomic profiles that govern gene expression. Isolation and epigenomic characterization of specific cell types is greatly needed in neuroscience. While single cell DNA modification studies offer promise to answer this question, these approaches suffer from limited genomic coverage and cannot differentiate between methylation and hydroxymethylation. Thus, approaches to isolate and analyze DNA from specific CNS cell populations are needed. Here we validate a temporally controlled in vivo nuclear tagging mouse model (NuTRAP) and isolation (INTACT) of neuronal nucleic acids. Analysis of differential DNA modifications (methylation and hydroxymethylation) and gene expression in neurons, astrocytes, and microglia demonstrates a common regulatory function for DNA modifications that transcends cell type. Insight into the normal function of DNA modifications in genomic regulation is crucial in order to better understand the epigenomic mechanisms underlying disease.
Overall design Camk2a-cre/ERT2;NuTRAP; Nuclei isolated via INTACT method- Input, Negative, and Positive Fractions; 4 biological replicates
Contributor(s) Tooley KB, Chucair-Elliott AJ, Ocanas SR, Pham KD, Stanford DR, Freeman WM
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Submission date Mar 23, 2023
Last update date Sep 22, 2023
Contact name Kyla Tooley
Organization name Oklahoma Medical Research Foundation
Department Genes and Human Disease
Lab Dr. Willard Freeman
Street address 825 NE 13th St
City Oklahoma City
State/province OK
ZIP/Postal code 73104
Country USA
Platforms (2)
GPL16417 Illumina MiSeq (Mus musculus)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (40)
GSM7113196 389InputBS
GSM7113197 389InputBSms
GSM7113198 389InputoxBS
This SubSeries is part of SuperSeries:
GSE228045 Differential usage of DNA modifications in neurons, astrocytes and microglia
BioProject PRJNA947923

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Supplementary file Size Download File type/resource
GSE228044_RAW.tar 7.7 Gb (http)(custom) TAR (of TXT)
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Raw data are available in SRA
Processed data provided as supplementary file

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