TGen's Center for Spatial Multi-Omics (COSMO)

Vizgen MERSCOPE Ultra

Custom Panels up to 960 Genes
Imageable area up to 3cm²
Cell Segmentation
Protein Stain Add-ons 

Using Multiplex Error-Robust Fluorescence In Situ Hybridization (MERFISH), the MERSCOPE Ultra allows the spatial mapping of 960 custom RNA targets at subcellular resolution (≤100nm resolution). 

MERSCOPE Ultra has two different sized flowcells to allow for experimental customization with varying sizes of tissue: 1.25cm² and 3cm². 

On-instrument cell segmentation uses machine learning to combine nuclei staining, total mRNA abundance (poly-A), and cell boundary staining. 

Predesigned panels available:

Human PanCancer Pathways, Human Immuno-Oncology, Mouse PanNeuro 

Compatible with both frozen and FFPE samples.

10X Genomics Xenium

Custom Panels up to 480 Genes
Imageable area of 2.88cm²
Cell Segmentation
Post-Run H&E or IF 

Using high-throughput RNA Fluorescence In Situ Hybridizaiton, the Xenium Analyzer allows the spatial mapping of 480 custom RNA targets, or 5000 predesigned RNA targets at subcellular resolution (~0.2 microns/pixel). 

Each instrument run profiles two slides for a total imageable area of 5.76cm² per run. 

On-instrument cell segmentation uses machine learning to combine nuclei staining, interior-RNA abundance, interior-protein abundance, and cell boundary staining.

 H&E or IF staining can be performed on the same tissue slide following a Xenium run, allowing for the unique overlap of pathological analysis and gene expression. 

Predesigned panels available:

Human Brain, Human Breast, Human Lung, Human Immuno-Oncology, Human Colon, Human Skin, Human Multi-Tissue, Human 5000 Gene, Mouse Brain, Mouse Multi-Tissue, Mouse 5000 Gene 

Compatible with both frozen and FFPE samples.

10X Genomics Visium HD

Whole Transcriptome
Imageable area of 0.85cm²
FFPE Blocks or Archived Slides
H&E or IF Image Mapping 

Using probe-based capture of transcriptomic data, Visium HD allows whole transcriptome level mapping of a tissue section in 2x2 µm bins with no gaps in tissue coverage. These probes can then be sequenced and mapped back to their bin location on the tissue slide image. 

Constructed gene expression library is sequenced at a recommended depth of 275 million read pairs for capture areas fully covered by tissue. 

Sample slides can be H&E or IF stained prior to Visium HD run. 

Compatible with FFPE blocks or archived FFPE slides.