GitHub link: https://github.com/erturklab/mouseMapper

Supplementary content

Supplementary Video 1
Whole-body reconstructions of normal (left) and obese (right) UCHL1-EGFP mice. Peripheral nerves (UCHL1-EGFP+) are shown in green, bones and organs are shown in red (propidium iodide labeled) and muscle (autofluorescence) is shown in blue.

Supplementary Video 2
Whole-body reconstructions of normal (left) and obese (right) CD68-EGFP mice. Immune cells (CD68-EGFP+) are shown in cyan, bones and organs are shown in magenta (propidium iodide labeled) and muscle (autofluorescence) is shown in yellow.

Supplementary Video 3
Whole-body reconstructions of a chow-fed CD68-EGFP mouse showing CD68-EGFP+ cells in the whole mouse. Immune cells (CD68-EGFP+) are shown in cyan, bones and organs are shown in magenta (propidium iodide labeled) and muscle (autofluorescence) is shown in yellow.

Supplementary Video 4
Supplementary Video 4. Whole-body reconstructions of a HFD-fed CD68-EGFP mouse showing infiltrating CD68-EGFP+ cells in the whole mouse with accumulations in ScAT, ViscAT and the peritoneum. Immune cells (CD68-EGFP+) are shown in cyan, bones and organs are shown in magenta (propidium iodide labeled) and muscle (autofluorescence) is shown in yellow.

Supplementary Video 5
Representative chow-fed mouse showing AI-segmented organs and tissue. Each color represents a different organ or tissue segmented using the Tissue-Module of MouseMapper.

Supplementary Video 6
Representative obese mouse showing AI-segmented organs and tissue. Each color represents a different organ or tissue segmented using the Tissue-Module of MouseMapper.

Supplementary Video 7
Representative obese CD68-EGFP mouse showing AI-segmented immune cell clusters (blue: small clusters, green: medium-sized clusters, red: large-sized clusters).