Supplementary Figure 3: FISH analysis with MAGIC and scImpute.
From: SAVER: gene expression recovery for single-cell RNA sequencing
RNA FISH validation of MAGIC and scImpute results for 15 genes. (a) Comparison of Gini coefficient for each gene between FISH and MAGIC (left) and between FISH and scImpute recovered values (right) for n = 15 genes. (b) Comparison of Drop-seq, MAGIC, scImpute, and SAVER Kolmogorov-Smirnov (KS) distance to FISH distributions for the 15 genes. (c) Kernel density estimates of cross-cell expression distribution of LMNA (upper) and CCNA2 (lower) for MAGIC and scImpute. (d) Comparison of pair-wise gene correlations computed from Drop-seq, SAVER, MAGIC, and scImpute with those computed from FISH counts. (e) Scatterplots of expression levels between BABAM1 and LMNA. Pearson correlations were calculated across n=17,095 cells for FISH and n=8,498 cells for MAGIC and scImpute.
