Related tissue preparation services
Sample quality check services (as recommended by 10X genomics)
Spatial Transcriptomics Platforms
Spatial transcriptomics is a cutting-edge approach that measures gene expression while preserving the spatial context of cells within a tissue. Unlike single-cell transcriptomics, which requires cells to be dissociated, spatial methods allow researchers to see where genes are expressed within intact tissue architecture. This makes it possible to map molecular activity across brain regions, link gene expression to histological features, and study how cells interact with their neighbors in health and disease.
Currently we offer library preparation services for the 10x Genomics Visium and Visium HD platforms. Compatible with fresh-frozen, fixed frozen, and FFPE tissues.
RNA Extraction and RIN/DV200 assessment
These are correlated with improved assay outcomes but do not guarantee high yields
- For Visium HD on fresh frozen tissue, a minimum RIN value of ≥4 is recommended to improve assay outcomes.
- For Visium HD on fixed frozen tissues, a DV200 value ≥ 50% is recommended to improve assay outcomes.
- For Visium HD on FFPE tissues, a DV200 value ≥ 30% is recommended to improve assay outcomes.
DAPI nuclei morphology assessment
An optional check for the quality of cell nuclei prior to running the assay. DAPI staining is performed to check for:
- Punctate nuclei that are clearly defined
- DAPI staining that does not appear washed out
Slide preparation for assay:
Tissue sectioning from paraffin or frozen blocks
- FFPE: 3–10 µm (5 µm recommended)
- Fresh/fixed-frozen: 10–20 µm (10 µm recommended, but up to 20 µm has been validated by 10X)
H&E staining and high resolution 20X tissue imaging (imaging in partnership with HBI AMP Facility)
Paraffin Embedding
Fixed tissues can be provided to the Neuro-Omics Core for tissue processing and paraffin embedding services for use in spatial transcriptomic workflows
Check back for additional spatial platform assays coming this fall!