Spatial omics encompasses a range of techniques that enable the exploration of tissues at the molecular level, focusing on mRNA or protein analysis.
Several EPFL core facilities provide tools for conducting spatial omics experiments, spanning from spatial transcriptomics to spatial proteomics. You’ll find an overview of the available options below.
If you need assistance with your grant, wish to utilize any of these technologies, require more information, or have any other inquiries, please don’t hesitate to contact:
| Name | by | Omics type | Readout | Complexity | Resolution | Field of view | Sample type | Detect other molecules? | |||
|---|---|---|---|---|---|---|---|---|---|---|---|
| NGS | Imaging | (target number) | FFPE | Fresh frozen | Fixed frozen | ||||||
| Visium | 10x Genomics | RNA |  | | Untargeted whole transcriptome | 100um | 6.5×6.5mm 11x11mm | * | | * | H&E or proteins before |
| Visium HD Cytassist | 10x Genomics | RNA | | | Targeted whole transcriptome | 2-8um | 6.5×6.5mm | | | | H&E or proteins before |
| RNAscope | BioTechne ACDbio | RNA |  | | 4 | microscope dependent | Whole slide | | | | Proteins |
| HybISS | In house | RNA | | | 250 | 0.42um | 6x6mm | | | | H&E or proteins after |
| Xenium | 10x Genomics | RNA | | | 350 5k | 0.42um | 12x24mm | | | | Fixed protein panel after |
| Comet | BioTechne Lunaphore | Proteins | | | 40 | 0.42um | 12.5×12.5mm | | | | mRNA coming soon |
| Discovery Ultra | Roche Ventana | Proteins | | | 5 | microscope dependent | Whole slide | | | | mRNA |
| LCM | In house | Protein | | MS-based | up to 8000 | ~10um | NA | | | | H&E before |
