Fig. 2

Recovering the earliest in vivo P. vivax blood stage transcriptome. Uninfected and post-infection blood samples were derived from the same individual. A total of 12 paired individual genomics data were analysed. a Cloud-based sequence mining revealed that only the post-infection RNAseq raw data set contains parasite sequences in all patients. Patient identifiers are from the publication by Rojas et al. The P. vivax reads number is generated with stringent criteria and reflects conservative estimation. b On average, less than 0.5% of total signal is derived from P. vivax. The mapped data of total reads and percentage of alignment in individual patient samples are listed in Table 1. c The log(FPKM) distribution of all patients. FPKM represents fragments per kilobase of exon per million fragments mapped. Pre represents uninfected, while Dx means infected. Only the genes with FPKM > 0 are plotted here. The labels on the horizontal axis represent de-identified patient numbers. d RNAseq recovered parasite transcriptome in infected samples. RKPM refers to Reads Per Kilobase of transcript per Million mapped reads. Genes expressed in at least two patients are plotted