GEO DataSets

(Submitter supplied) Several genetic risk factors for Alzheimer’s Disease (AD) implicate genes involved in lipid metabolism and many of these lipid genes are highly expressed in glial cells. However, the relationship between lipid metabolism in glia and AD pathology remains poorly understood. Through single-nucleus RNA-sequencing of AD brain tissue, we have identified a microglial state defined by the expression of the lipid droplet (LD) associated enzyme ACSL1 with ACSL1-positive microglia most abundant in AD patients with the APOE4/4 genotype. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL24676 GPL18573

102 Samples

Download data: H5AD

(Submitter supplied) The apolipoprotein E4 (APOE4) variant is the single greatest genetic risk factor for sporadic Alzheimer's disease (sAD). However, the cell-type-specific functions of APOE4 in relation to AD pathology remain understudied. Here, we utilize CRISPR/Cas9 and induced pluripotent stem cells (iPSCs) to examine APOE4 effects on human brain cell types. Transcriptional profiling identified hundreds of differentially expressed genes in each cell type, with the most affected involving synaptic function (neurons), lipid metabolism (astrocytes), and immune response (microglia-like cells). more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL18573 GPL11154

26 Samples

Download data: TXT

(Submitter supplied) Cells in the cortex of mice expressing apoE3 or apoE4 in the microglia were isolated and subjected to the single-cell RNA seq to investigate the effects of microglia/CNS-associated macrophages (CAMs) apoE on the brain transcriptomic profiles. Our data revealed that microglia/CAM-expressed apoE3 promotes antigen presentation and immune patnways, whereas apoE4 down-regulates complement and promotes stress-related responses.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21103

24 Samples

Download data: MTX, TSV

(Submitter supplied) Despite its clear impact on Alzheimer’s Disease (AD) risk, apolipoprotein (apo) E4’s contributions to AD etiology remain poorly understood. Progress in answering this and other questions in AD research has been limited by an inability to model human-specific phenotypes in an in vivo environment. Here we transplanted human induced pluripotent stem cell (hiPSC)-derived neurons carrying normal apoE3 or pathogenic apoE4 into human apoE3 or apoE4 knock-in mouse hippocampi, enabling us to disentangle the effects of apoE4 produced in human neurons and in the brain environment. more...

Organism:

Homo sapiens; Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25526

4 Samples

Download data: MTX, TSV

(Submitter supplied) Apolipoprotein E4 (APOE4) is the greatest known genetic risk factor for developing late-onset Alzheimer’s disease and its expression in microglia is associated with pro-inflammatory states. How the interaction of APOE4 microglia with neurons differs from microglia expressing the disease-neutral allele APOE3 is currently unknown. Here, we employ CRISPR-edited induced pluripotent stem cells (iPSCs) to dissect the impact of APOE4 in neuron-microglia communication. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18573

12 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens; Mus musculus

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

4 related Platforms

274 Samples

Download data: BW, TAR

(Submitter supplied) We used bulk RNA sequencing to investigate the molecular signature of microglia affected by deletion of microglial APOE4 in APP/PS1 mice.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

31 Samples

Download data: TAR

(Submitter supplied) We used bulk RNA sequencing to investigate the molecular signature of both phagocytic microglia and non-phagocytic microglia affected by deletion of Itgb8 in microglia.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

22 Samples

Download data: TAR

(Submitter supplied) We used bulk RNA sequencing to investigate the molecular signature of microglia affected by administering an Itgb8 blocker in APP/PS1 mice

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

10 Samples

Download data: TAR

(Submitter supplied) We used bulk RNA sequencing to investigate the molecular signature of microglia isolated from Itgb8 cKO vs. Control mice.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

9 Samples

Download data: TAR

(Submitter supplied) We used bulk RNA sequencing to investigate the molecular signature of total tissue isolated from AD patients carrying APOE ε3/ε3 and APOEε3/ε4 alleles.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18573

25 Samples

Download data: TAR

(Submitter supplied) We used bulk RNA sequencing to investigate the molecular signature of astrocytes affected by microglial APOE4 in P301S mice.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

11 Samples

Download data: TAR

(Submitter supplied) We used bulk RNA sequencing to investigate the astrocytic signature isolated from dead-neuron-injected 8-month-old APOE4-cKO mice compared with APOE4-KI mice

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

8 Samples

Download data: TAR

(Submitter supplied) We used bulk RNA sequencing to investigate the astrocytic signature of astrocytes affected by Lgals3 injection in microglia.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

10 Samples

Download data: TAR

(Submitter supplied) We used bulk RNA sequencing to investigate the astrocytic signature of astrocytes affected the transfer of MGnD microglia

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

9 Samples

Download data: TAR

(Submitter supplied) We used single cell RNA sequencing (scRNA-seq) to analyze the subsets of CNS cells affected by deletion of APOE4 in microglia.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30172

4 Samples

Download data: TAR

(Submitter supplied) We used bulk RNA sequencing to investigate the molecular signature of microglia affected by microglia-specific APOE isoform (APOE3 vs. APOE4) in both WT and P301S mice

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

53 Samples

Download data: TAR

(Submitter supplied) We used bulk RNA sequencing to investigate the molecular signature of astrocytes affected by PU.1 inhibitor in APP/PS1:APOE4 KI mice.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

9 Samples

Download data: TAR

(Submitter supplied) We used bulk RNA sequencing to investigate the molecular signature of microglia affected by PU.1 inhibitor in APP/PS1:APOE4-KI mice.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

9 Samples

Download data: TAR

(Submitter supplied) We used bulk RNA sequencing to investigate the molecular signature of phagocytic microglia affected by deletion of Spi1 in microglia.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

8 Samples

Download data: TAR