Details - ssREAD

General information

Overview

Data ID: AD00101

Species: Human

Region: Prefrontal cortex

Condition: Control

Braak stage: 1 - 3; 2 - 4

Sex: Male

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

Related datasets

AD00101 | AD00102 | AD00103 | AD00104 | AD00105 | AD00106 | AD00107 | AD00108 | AD00109 | AD00110 |

Dataset information

Number of cells: 29342

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

Public Data ID: syn18485175

Pubmed: 31042697

DOI: 10.1038/s41586-019-1195-2

Statement: The results published here are in whole or in part based on data obtained from the AD Knowledge Portal (https://adknowledgeportal.org). Samples for this study were provided by the Rush Alzheimer' Disease Center, Rush University Medical Center, Chicago. Data collection was supported through funding by NIA grants P30AG10161, R01AG15819, R01AG17917, R01AG30146, R01AG36836, U01AG32984, U01AG46152, the Illinois Department of Public Health, and the Translational Genomics Research Institute.

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

Public Data ID: syn21125841

Pubmed: 31932797

DOI: 10.1038/s41591-019-0695-9

Cell clustering

Cell type & subcluster:

Total cells in the plot: 29342

Gene expression

Point size:

4

Please enter a gene symbol.

Differential expression (DE) / Gene set enrichment

Note: The MAST package were used to calculate DEGs on normalized gene expression data (parameter: log2FC > 0.25, adj.p-value < 0.05).

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:

All

UP

Down

Search

Total genes returned from query without filtering: 2913

Total genes in the table after filtering: 197

Sort by
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