Version: 1.0.0 | Published: 24 Sep 2026 | Updated: 0 days ago
Documentation
Description:
Microglia play a key role in the response to amyloid beta in Alzheimer’s disease (AD). In this context, the major transcriptional response of microglia is the upregulation of APOE, the strongest late-onset AD risk gene. Of its three isoforms, APOE2 is thought to be protective, while APOE4 increases AD risk. We hypothesised that the isoforms functionally alter microglia by shaping their transcriptomic and chromatin landscapes. We used RNA- and ATAC-sequencing to profile gene expression and chromatin accessibility of human microglia isolated from a xenotransplantation model of AD. We identified widespread transcriptomic and epigenomic differences which are dependent on APOE genotype, and are corroborated across the profiling assays.
Overall design: To investigate the effects of the human APOE isoforms (APOE2, APOE3, APOE4) and the APOE-KO on the microglial response to amyloid beta pathology, we performed RNA-seq and ATAC-seq to profile the transcriptomic and epigenomic landscapes of human microglia xenotransplanted into the brains of the AppNL-G-F mouse model of Alzheimer"s disease.
See associated code in https://github.com/Marzi-lab/APOE_microglia
Access ATAC-seq results here: https://discover.alzheimersdata.org/catalogue/datasets/f937555f-36b0-4588-910d-222a5fe2bf31
Coverage
Spatial:
US
Follow Up:
Unknown
Provenance
Temporal
Accrual Periodicity:
Static
Start Date:
01 January 2026
Time Lag:
Not applicable
Accessibility
Access
Access Rights:
See dataset for details. Access data at:
Usage
Resource Creators:
Sarah J Marzi
Observations
Statistical Population
Population Description
Population Size
Measured Property
Observation Date
Persons
1
Count
01 January 2026