SAIL is constantly comparing and testing different samples preparation methods or single-cell / spatial genomics approaches. Amongst our most recent efforts we have:
Conducted comprehensive benchmarking studies comparing nuclei preparation techniques (Singulator by S2 Genomics, Miltenyi, 10X Genomics, and previously published method, Slyder et al), has shown that Singulator and Miltenyi consistently out-performed other methods on the three different tissues (based on UMIs count and cell types recovered) we have tested (CRC, Healthy mouse liver and GBM). To disseminate these findings, we are currently preparing a manuscript and have been presenting those results at conference (Keystone in June 2023, Human Cell Atlas in July 2023).
Evaluated fixed (Flex kit) versus fresh samples (3’ v3.1) methods by 10X Genomics on two different challenging sample types (LUAD and Healthy breast tissue) presenting our results at multiple conferences to inform the scientific community and improve experimental practices.
Conducted head-to-head comparisons of five different dead cell removal protocols, including LeviCell, FACS, Miltenyi, Akadeum, and Stem Cell, assessing what methods is the least “traumatic” for fragile cell type. This comparison has been conducted on CSF (Boire’s lab) and Lymph Node tissue (Brown’s lab), which have been two tissue showing stress during sample preparation in the past.
Those results have been and will be presented at various conferences this year. We are hoping to have those published online really soon too. Please reach out to us if you want more details.