Extended Data Fig. 9: SCCAF helps in annotating a new unannotated dataset of the human brain.
From: Putative cell type discovery from single-cell gene expression data
Human brain single nuclei-Seq data (http://celltypes.brain-map.org/rnaseq) from Middle Temporal Gyrus, Primary Visual Cortex, Anterior Cingulate Cortex and Lateral Geniculate (33,782 cells in total) were analyzed together. In the t-SNE plots, cells are colored according to the a) cortical area and the cell classes. Projection-based annotation approaches (logistic regression and CHETAH) were used to annotate the dataset using the mouse brain data from Tasic et al. were applied considering the ortholog genes between human and mouse. And the results are colored in the t-SNE plots in b. SCCAF was also used to identify the discriminative cell clusters and resulted in 38 clusters. c, Each cell cluster is annotated according to the top-ranked feature genes extracted from the SCCAF model. d, Self-projection accuracy and ROC curves are compared for these three annotation approaches.
