After thresholding for 500 genes and 1,000 transcripts and filtering for high quality single-cells, a UMAP plot of single cells from the HIVE™ device was generated and colored by cell type [Figure 3A]. ~4,400 high quality single-cells were recovered, with ~2,300 unique genes per cell and ~4,250 unique transcripts per cell. Sixteen cell-types were identified, including multiple distinct malignant clusters and myeloid clusters. Heterogeneity was observed within the malignant clusters. Additionally, there was robust and specific expression of marker genes for each cell type. Distinguishing between microglia and macrophage cell-types can be challenging due to their similarities in gene expression profiles. Here we see the robust expression of the microglia-specific marker P2RY12 restricted to one cluster [Figure 3B].
About 92% of the sample is composed of malignant cell-types and states, including astro-mesenchymal, proliferating, and oligodendrocyte precursor cells [Figure 4]. Frequencies of each cell class will vary depending on the biopsy.