Summary
Publication

Title: Integrated multimodal cell atlas of Alzheimers disease: SEA-AD MERFISH

Authors: Gabitto, et al.

Date published: 5/23/23

Date added: 12/1/23

Journal: bioRxiv

DOI: 10.1101/2023.05.08.539485

Protocol: MERFISH

Data source: SEA-AD MERFISH

Study design

Species: human

Number of samples: 24

Region: Middle Temporal Gyrus

Figure: MTG quantitative neuropathology orders donors according to pseudo-progression of disease.

Spot-level data

Select sample:

Current selection:

ssREAD sample ID:

Sample raw name:

Total spots in the plot: 582

Clusters to plot:

Point size:

4

Image opacity:

0.4

Point opacity:

1

Gene expression

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Spatially variable genes

Sample:

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
Foldchange direction:
Clu 3.14565 0 0.00e+0 0.972 0.236 0.083 1.944 1.180
Apoe 2.86685 0 0.00e+0 1.000 0.569 0.199 2 2.845
Differential expression (DE) / Gene set enrichment

Sample:

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

Group:

Cluster:

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:
Clu 3.14565 0.972 0.236 0.00e+0
Apoe 2.86685 1 0.569 0.00e+0
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