Figure 3
From: Plasmodium falciparumgene expression measured directly from tissue during human infection
Imputation of global expression profiles based on landmark P. falciparum genes. (A) Model fitting. Spearman rank correlations between imputed and observed gene expression for 3,696 genes, based on imputation from varying numbers of probes. (B) Model testing. Spearman rank correlations between imputed and observed gene expression in 52 peripheral blood RNA samples, measured with both Affymetrix microarrays and nCounter®, before and after imputation. IAvA: imputed Affy vs. Affy (n = 3,969 genes); NvA: nCounter® vs. Affy (n = 328 genes); INvA: imputed nCounter® vs. Affy (n = 3,696 genes). (C) Cumulative distribution of median differences in rank abundance for 3,696 genes between gene expression imputed from nCounter® versus Affy, averaged over 52 peripheral blood RNA samples. (D) Cumulative distribution of Pearson correlations between imputed and measured gene expression, averaged over 52 peripheral blood RNA samples. (E) Correlation between imputed and observed gene expression scales with expression level. Pearson correlation versus quantile-normalized and log2-transformed gene expression for 3,696 genes averaged over 52 peripheral blood RNA samples.