Table 3.
Specific features from CellProfiler used as input for UMAP
| Metric | Region of interest source |
Target used for measurement |
|---|---|---|
| Compactness | Synapsin1 | Synapsin1 |
| Eccentricity | Synapsin1 | Synapsin1 |
| Euler number | Synapsin1 | Synapsin1 |
| Extent | Synapsin1 | Synapsin1 |
| Form factor | Synapsin1 | Synapsin1 |
| Major axis length | Synapsin1 | Synapsin1 |
| Maximum radius | Synapsin1 | Synapsin1 |
| Mean radius | Synapsin1 | Synapsin1 |
| Minor axis length | Synapsin1 | Synapsin1 |
| Orientation | Synapsin1 | Synapsin1 |
| Perimeter | Synapsin1 | Synapsin1 |
| Solidity | Synapsin1 | Synapsin1 |
| Puncta number | Synapsin1 | Homer-1b/c |
| Puncta number | Synapsin1 | NR2B |
| Puncta number | Synapsin1 | PSD-95 |
| Puncta number | Synapsin1 | SHANK3 |
| Puncta number | Synapsin1 | Actin |
| Puncta number | Synapsin1 | Cortactin |
| Puncta number | Synapsin1 | vGlut-1 |
| Integrated intensity edge | Synapsin1 | DAPI |
| Integrated intensity edge | Synapsin1 | Gephyrin |
| Integrated intensity | Synapsin1 | NR2B |
| Integrated intensity | Synapsin1 | PSD-95 |
| Integrated intensity | Synapsin1 | SHANK3 |
| Integrated intensity | Synapsin1 | Actin |
| Integrated intensity | Synapsin1 | Synapsin1 |
| Integrated intensity | Synapsin1 | vGlut-1 |
| Lower quartile intensity | Synapsin1 | Synapsin1 |
| MAD intensity | Synapsin1 | DAPI |
| MAD intensity | Synapsin1 | Gephyrin |
| MAD intensity | Synapsin1 | Homer-1b/c |
| MAD intensity | Synapsin1 | MAP2 |
| MAD intensity | Synapsin1 | PSD-95 |
| MAD intensity | Synapsin1 | SHANK3 |
| MAD intensity | Synapsin1 | Actin |
| MAD intensity | Synapsin1 | Bassoon |
| MAD intensity | Synapsin1 | Cortactin |
| MAD intensity | Synapsin1 | Synapsin1 |
| MAD intensity | Synapsin1 | vGAT |
| Mass displacement | Synapsin1 | DAPI |
| Mass displacement | Synapsin1 | Gephyrin |
| Mass displacement | Synapsin1 | Homer-1b/c |
| Mass displacement | Synapsin1 | MAP2 |
| Mass displacement | Synapsin1 | NR2B |
| Mass displacement | Synapsin1 | PSD-95 |
| Mass displacement | Synapsin1 | SHANK3 |
| Mass displacement | Synapsin1 | Actin |
| Mass displacement | Synapsin1 | Bassoon |
| Mass displacement | Synapsin1 | Cortactin |
| Mass displacement | Synapsin1 | Synapsin1 |
| Mass displacement | Synapsin1 | vGlut-1 |
| Mass displacement | Synapsin1 | vGAT |
| Min intensity edge | Synapsin1 | Homer-1b/c |
| Min intensity edge | Synapsin1 | NR2B |
| Min intensity edge | Synapsin1 | PSD-95 |
| Min intensity edge | Synapsin1 | SHANK3 |
| Min intensity edge | Synapsin1 | Actin |
| Min intensity edge | Synapsin1 | Bassoon |
| Min intensity edge | Synapsin1 | Cortactin |
| Min intensity edge | Synapsin1 | vGlut-1 |
| Min intensity | Synapsin1 | Gephyrin |
| Min intensity | Synapsin1 | MAP2 |
| Min intensity | Synapsin1 | Synapsin1 |
| Min intensity | Synapsin1 | vGAT |
| Std intensity | Synapsin1 | Gephyrin |
| Std intensity | Synapsin1 | NR2B |
| Std intensity | Synapsin1 | vGlut-1 |
| Upper quartile intensity | Synapsin1 | DAPI |
| Distance (centroid) | Gephyrin | Gephyrin |
| Integrated intensity | Gephyrin | Gephyrin |
| Mass displacement | Gephyrin | Gephyrin |
| Std intensity | Gephyrin | Gephyrin |
| Distance (centroid) | Homer-1b/c | Homer-1b/c |
| Integrated intensity | Homer-1b/c | Homer-1b/c |
| MAD intensity | Homer-1b/c | Homer-1b/c |
| Mass displacement | Homer-1b/c | Homer-1b/c |
| Min intensity edge | Homer-1b/c | Homer-1b/c |
| Distance (minimum) | NR2B | NR2B |
| Integrated intensity | NR2B | NR2B |
| MAD intensity | NR2B | NR2B |
| Mass dissplacement | NR2B | NR2B |
| Distance (minimum) | PSD-95 | PSD-95 |
| Integrated intensity | PSD-95 | PSD-95 |
| MAD intensity | PSD-95 | PSD-95 |
| Mass displacement | PSD-95 | PSD-95 |
| Min intensity | PSD-95 | PSD-95 |
| Distance (minimum) | SHANK3 | SHANK3 |
| Integrated intensity | SHANK3 | SHANK3 |
| MAD intensity | SHANK3 | SHANK3 |
| Mass displacement | Actin | Actin |
| Distance (centroid) | Actin | Actin |
| Integrated intensity | Actin | Actin |
| MAD intensity | Actin | Actin |
| Mass displacement | Actin | Actin |
| Distance (centroid) | Bassoon | Bassoon |
| MAD intensity | Bassoon | Bassoon |
| Mass displacement | Bassoon | Bassoon |
| Distance (centroid) | Cortactin | Cortactin |
| Integrated intensity | Cortactin | Cortactin |
| MAD intensity | Cortactin | Cortactin |
| Mass displacement | Cortactin | Cortactin |
| Min intensity | Cortactin | Cortactin |
| MAD intensity | vGlut-1 | vGlut-1 |
| Mass displacement | vGlut-1 | vGlut-1 |
| Min intensity edge | vGlut-1 | vGlut-1 |
| Mass displacement | vGAT | vGAT |
| Min intensity | vGAT | vGAT |
| Std intensity edge | vGAT | vGAT |
The region of interest source is the image that was used to create the regions of interest (the puncta objects). The target used for measurement is the image source that the region of interest was used on. For example, synapsin1 puncta (regions of interest) are always created from synapsin1 images, but measurements using those regions can come from any image source, i.e., we can examine what the signal of vGlut-1, homer-1b/c, etc. is within the regions created by the synapsin1 objects.