scREAD A Single-cell RNA-Seq Database for Alzheimer's Disease
General information
Overview

scREAD Data ID: AD00101

Species: Human

Region: Prefrontal cortex

Condition: Control

Braak stage: 1 - 3; 2 - 4

Gender: Male

Age: 75-90+ years; 77-90+ years

Datasets from the same experiment
Dataset information

Number of AD associated cells: 29342

Number of control-like cells: 12

Number of identified cell types: 7

Dataset source 1:

Title: Single-cell Transcriptomic Analysis of Alzheimer's Disease

Methodology: Single-nucleus RNA-seq

Protocol: 10x Genomics

GEO/synapse number: syn18485175

Pubmed ID: 31042697

Citation: Mathys, H., Davila-Velderrain, J., Peng, Z. et al. Single-cell transcriptomic analysis of Alzheimer’s disease. Nature 570, 332–337 (2019). 10.1038/s41586-019-1195-2

Dataset source 2:

Title: Human_and_Mouse Single-Nucleus Transcriptomics Reveal TREM2-dependent_and_TREM2-independent Cellular Responses in Alzheimer's Disease

Methodology: Single-nucleus RNA-seq

Protocol: 10x Genomics

GEO/synapse number: syn21125841

Pubmed ID: 31932797

Citation: Zhou Y, Song WM, Andhey PS, Swain A et al. Human_and_mouse single-nucleus transcriptomics reveal TREM2-dependent_and_TREM2-independent cellular responses in Alzheimer’s disease. Nat Med 2020 Jan;26(1):131-142.

Cell clustering

Cell type & subcluster:

Gene expression

Point size:

4
Differential expression (DE) / Gene set enrichment

Group:

Find differentially expressed genes in each cell type by comparing it to all of the others.

Cell type of interest:

Log2 fold-change cutoff:

0.5

Adjusted p-value cutoff:

10^-6
10^-5
10^-4
10^-3
0.01
0.05
0.1
1
DE direction:
SLC1A2 2.59239 0.928 0.225 0.00e+0
AQP4 2.3522 0.792 0.082 0.00e+0
SLC1A3 2.32054 0.907 0.152 0.00e+0
ATP1A2 2.27344 0.844 0.095 0.00e+0
GJA1 2.16379 0.673 0.025 0.00e+0
GFAP 2.09579 0.664 0.114 0.00e+0
F3 2.02364 0.54 0.023 0.00e+0
ATP1B2 1.98804 0.675 0.129 0.00e+0
CHI3L1 1.98517 0.3 0.031 0.00e+0
COL5A3 1.98395 0.664 0.055 0.00e+0
TPD52L1 1.9728 0.709 0.063 0.00e+0
RYR3 1.95868 0.794 0.112 0.00e+0
SLC14A1 1.94593 0.573 0.008 0.00e+0
AHCYL1 1.91795 0.753 0.261 0.00e+0
FGFR3 1.91305 0.647 0.015 0.00e+0