Summary
Publication

Title: Spatial Transcriptomics and In Situ Sequencing to Study Alzheimer's Disease

Authors: Wei-Ting Chen, Ashley Lu, Katleen Craessaerts, Benjamin Pavie, Carlo Sala Frigerio, Nikky Corthout, Xiaoyan Qian, Jana Lalkov, Malte Khnemund, Iryna Voytyuk, Leen Wolfs, Renzo Mancuso, Evgenia Salta, Sriram Balusu, An Snellinx, Sebastian Munck, Aleksandra Jurek, Jose Fernandez Navarro, Takaomi C Saido, Inge Huitinga, Joakim Lundeberg, Mark Fiers, Bart De Strooper

Date published: 8/20/20

Date added: 5/1/22

Journal: Cell

DOI: 10.1016/j.cell.2020.06.038

Protocol: in situ ST

Data source: GSE152506

Study design

Species: human, mouse

Number of samples: 20

Region: Whole brain (mouse), SFG (human)

Figure: Graphical abstract.

Spot-level data

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Sample raw name:

Total spots in the plot: 582

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4

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Gene expression

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Spatially variable genes

Sample:

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0.5

Adjusted p-value cutoff:

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Foldchange direction:
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
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DE direction:
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