Fig. 3: Adaptive sampling enriches RNA populations in the transcriptome.

a Bar plots showing the percentage of reads that the top 50, 100, 150, 500, and 1000 expressed genes occupy in bulk sequencing data. b Bar plots showing the distribution of transcript abundance in the Candida albicans transcriptome. In total, 319 genes from the 80–90th percentile of abundant genes are selected for enrichment. c Number of total reads obtained from 319 transcripts using either 50% bulk sequencing or adaptive sampling (enrichment mode). Top: Schematic showing the experimental design: 50% of the pores are set for bulk sequencing (gray) and adaptive sampling (blue) in a flow cell. Bottom, Bar plots showing the number of reads from the selected 319 genes and the rest of the transcriptome in the rejected read-pool after adaptive sampling. d Bar plots showing the number of reads belonging to the 319 selected genes in bulk sequencing and adaptive sampling. e Number of total reads obtained from 319 transcripts using either 50% bulk sequencing or adaptive sampling after depleting 95% of the transcriptome. Top: Schematic showing the experimental design: 50% of the pores are set for bulk sequencing (gray) and adaptive sampling (blue) in a flow cell. Bottom, Bar plots showing the number of reads from the selected 319 genes and the rest of the transcriptome in the rejected read-pool after adaptive sampling. f Bar plots showing the number of reads belonging to 319 genes and the other 4997 genes upon depleting 95% of the transcriptome. g Top: Schematic showing the experimental design: 50% of the pores are selected for bulk sequencing and adaptive sampling in a flow cell. Bottom, Bar plots showing the number of reads belonging to the top 150 genes and the rest of the transcriptome in the rejected read-pool. h Bar plots showing the number of reads belonging to the rest of the transcriptome from 50% of pores that performed bulk sequencing and adaptive sampling by depleting the top 150 abundant genes. The color labels are as shown.