5 µm section from Human Intestinal Cancer. FFPE tissue purchased from BioIVT Asterand Human Tissue Specimens.
- Block 1281585B
- Large Intestine Colorectal cancer
- Brightfield camera, Magnification: 20x
Libraries were prepared following the Visium Spatial Gene Expression Reagent Kits for FFPE User Guide (CG000407 Rev A).
- Sequencing instrument: Illumina NovaSeq 6000, flow cell HCCVHDSX2 (lanes 1-2)
- Sequencing depth: 77,288 reads per spot
- Sequencing configuration: 28 bp read 1 (16 bp Visium spatial barcode, 12 bp UMI), 50 bp read 2 (transcript), 10 bp i7 sample barcode and 10 bp i5 sample barcode
- Dual-Index set: SI-TS-B1
- Slide: V10L13-021
- Area: B1
Key metrics were:
- Spots detected under tissue: 2,660
- Median genes per spot: 7,438
- Median UMI counts per spot: 25,312