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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Dec 29, 2023 |
| Title |
scRNAseq and scATACseq of Cd45+ cells from brains of 5XFAD mice bearing distinct APOE alleles and across age |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Other
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| Summary |
Here we analyze the gene expression and chromatin accessibility landscape of immune cells in the brains of 5XFAD mice, a common model of Alzheimer's disease, bearing knock-in of human APOE variants in the mouse APOE locus, and aged to 10, 20, 60, or 96 weeks of age.
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| Overall design |
Cd45+ cells were isolated from hippocampal and cortical regions of brains from 5XFAD APOE-hu/hu mice by fluorescence activated cell sorting (FACS) and analyzed using either scRNAseq or 10X multiome.
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| Web link |
https://www.cell.com/immunity/fulltext/S1074-7613(23)00532-0
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| Contributor(s) |
Millet A |
| Citation(s) |
38159571 |
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| Submission date |
Feb 16, 2023 |
| Last update date |
Jan 25, 2024 |
| Contact name |
Alon Millet |
| E-mail(s) |
amillet@rockefeller.edu
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| Organization name |
The Rockefeller University
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| Lab |
Tavazoie Lab
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| Street address |
1230 York Ave
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| City |
New York |
| State/province |
NY |
| ZIP/Postal code |
10065 |
| Country |
USA |
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| Platforms (1) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
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| Samples (8)
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| GSM7049627 |
E2/E3/E4 5XFAD mice, 10weeks, scRNAseq |
| GSM7049628 |
E2/E3/E4 5XFAD mice, 10weeks, HTO for demuxing |
| GSM7049629 |
E2/E3/E4 5XFAD mice, 20weeks, scRNAseq |
| GSM7049630 |
E2/E3/E4 5XFAD mice, 20weeks, HTO for demuxing |
| GSM7049631 |
E4 5XFAD mice, 60weeks, scRNAseq |
| GSM7049632 |
E4 5XFAD mice, 60weeks, scATACseq |
| GSM7049633 |
E3 5XFAD mice, 96weeks, scRNAseq |
| GSM7049634 |
E4 5XFAD mice, 96weeks, scRNAseq |
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| This SubSeries is part of SuperSeries: |
| GSE239999 |
An Exhausted-Like Microglial Population Accumulates in Aged and APOE4 Genotype Alzheimer’s Brains |
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| Relations |
| BioProject |
PRJNA935809 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE225503_RAW.tar |
1.4 Gb |
(http)(custom) |
TAR (of H5, TBI, TSV) |
| GSE225503_adapoe.rds.gz |
2.5 Gb |
(ftp)(http) |
RDS |
| GSE225503_mglia_only.rds.gz |
2.0 Gb |
(ftp)(http) |
RDS |
| GSE225503_multiome.rds.gz |
1.7 Gb |
(ftp)(http) |
RDS |
| GSE225503_multiome_mglia.rds.gz |
1.5 Gb |
(ftp)(http) |
RDS |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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