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| Status |
Public on Jul 09, 2020 |
| Title |
Characterization of the chromatin accessibility in an Alzheimer’s disease (AD) mouse model (ATAC-Seq) |
| Organism |
Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
The assay for transposase-accessible chromatin by sequencing (ATAC-seq) was used to investigate the AD-associated chromatin reshaping in the APPswe/PS1dE9 (APP/PS1) mouse model. ATAC-seq data in the hippocampus of 8-month-old APP/PS1 mice were generated, and the relationship between chromatin accessibility and gene expression was analyzed in combination with RNA-sequencing.We identified 1690 increased AD-associated chromatin accessible regions in the hippocampal tissues of APP/PS1 mice and 1003 decreased chromatin accessible regions were considered to be related with declined AD-associated biological processes.In the APP/PS1 hippocampus, 1090 genes were found to be up-regulated and 1081 down-regulated. Interestingly, enhanced ATAC-seq signal was found in approximately 740 genes, with 43 exhibiting up-regulated mRNA levels.Our study reveals that alterations in chromatin accessibility may be an initial mechanism in AD pathogenesis.
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| Overall design |
ATAC-seq was performed as previously described with minor modifications (Buenrostro et al., 2015).
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| Contributor(s) |
Wang Y, Zhang X, Song Q, Hou Y, Liu J, Wang P |
| Citation(s) |
32293531 |
| |
| Submission date |
Feb 25, 2020 |
| Last update date |
May 14, 2022 |
| Contact name |
Yaqi Wang |
| E-mail(s) |
wangyaqi0619@yeah.net
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| Organization name |
Xuanwu Hospital,Capital Medical University
|
| Street address |
Changchun Street No.45
|
| City |
Beijing |
| ZIP/Postal code |
100053 |
| Country |
China |
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| Platforms (1) |
| GPL13112 |
Illumina HiSeq 2000 (Mus musculus) |
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| Samples (6)
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| This SubSeries is part of SuperSeries: |
| GSE145908 |
Characterization of the chromatin accessibility in an Alzheimer’s disease (AD) mouse model |
|
| Relations |
| BioProject |
PRJNA608708 |
| SRA |
SRP250702 |
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