Supplementary Figure 6: Explanation of biological insights provided by SC3
(a) Illustration of the difference between marker genes and differentially expressed genes. In this small example, 20 cells containing 14 genes with binary expression values (blue for ‘off’, red for ‘on’) are clustered. Only genes 1-4 can be considered as marker genes, whereas all 14 genes are differentially expressed; (b) Density of distributions of AUROC (sample of 1000 values for each dataset) obtained from merging of 100 calculations of marker genes using randomly shuffled assignments of reference labels (provided by the authors, see Methods); (c) Outlier scores for all N= 268 cells of the Deng dataset as generated by SC3 (colors correspond to the 10 reference clusters provided by the authors – same as Stage in Fig. 2d). The nine cells with high outlier score in the red cluster (black arrow) were prepared using a different protocol (see text for details), and are thus assigned to a technical artifact.
