Details - ssREAD

General information

Overview

Data ID: AD00109

Species: Human

Region: Prefrontal cortex

Condition: Disease

Braak stage: 3, 5

Sex: Female

Age: 77-90+ years

Related datasets

AD00101 | AD00106 | AD00107 | AD00108 | AD00109 | AD00110 |

Dataset information

Number of cells: 9891

Number of identified cell types: 7

Dataset source

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: 9891

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: 1705

Total genes in the table after filtering: 59

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SLC1A2	2.4945	0.872	0.235	0.00e+0
AQP4	2.23576	0.681	0.107	0.00e+0
ADGRV1	2.16433	0.486	0.065	0.00e+0
GFAP	2.1362	0.93	0.223	0.00e+0
GJA1	2.07911	0.593	0.074	0.00e+0
CLU	1.88916	0.944	0.501	0.00e+0
ATP1B2	1.81486	0.635	0.134	0.00e+0
CST3	1.76712	0.862	0.285	0.00e+0
GLUL	1.73218	0.817	0.303	0.00e+0
ATP1A2	1.71717	0.698	0.157	0.00e+0
DTNA	1.64687	0.658	0.215	0.00e+0
FAM107A	1.64447	0.736	0.151	0.00e+0
COL5A3	1.63251	0.386	0.068	0.00e+0
ITM2C	1.53943	0.633	0.213	0.00e+0
SLC14A1	1.45974	0.347	0.016	0.00e+0