|
| Status |
Public on Jul 02, 2020 |
| Title |
Reduced Representation Bisulfite Sequencing from HD knock-in mouse model |
| Organism |
Mus musculus |
| Experiment type |
Methylation profiling by high throughput sequencing
|
| Summary |
We generated two types of DNA methylation datasets (Reduced Representation Bisulfite Sequencing [RRBS] and custom methylation array) from a heterozygous HD knock-in mouse model. The heterozygous Htt knock-in line expressed one wildtype endogenous Htt allele and a second Htt allele with knock-in of human mHTT exon 1 with either approximately 190 CAG repeats (Q175) or 20 CAG repeats (Q20). For each genotype (Q175 and Q20) we analyzed two brain regions (striatum and cerebellum) from 8 mice each on the RRBS platform (N=32 RRBS samples). Our EWAS of mutant Htt gene status (i.e. Q175 status) across the two brain regions identified two genome-wide significant CpGs in Htt region.
contributor: CHDI foundation
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| |
|
| Overall design |
Examine DNA methylation differentiation between Htt KI mouse lines Q175 and Q20 mice in cerebellum and striatum brain regions.
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| |
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| Citation(s) |
32913184, 36382198, 37563227, 38848365 |
| |
| Submission date |
Mar 18, 2020 |
| Last update date |
Jun 26, 2024 |
| Contact name |
Steve Horvath |
| E-mail(s) |
shorvath@altoslabs.com
|
| Organization name |
University of California, Los Angeles
|
| Department |
Human Genetics
|
| Lab |
Horvath
|
| Street address |
695 Charles E. Young Drive South, Box 708822
|
| City |
Los Angeles |
| State/province |
CA |
| ZIP/Postal code |
90095-7088 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL11002 |
Illumina Genome Analyzer IIx (Mus musculus) |
|
| Samples (32)
|
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| This SubSeries is part of SuperSeries: |
| GSE147004 |
DNA Methylation Study of Huntington's Disease and Motor Progression in Three Species |
|
| Relations |
| BioProject |
PRJNA613208 |
| SRA |
SRP253180 |
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