Figure 4.

Assessment of Genome and Transcriptome (hg38) Mapping Percentage by RNA-Sequencing Library Preparation Kit/Condition and by RNA Species Using Total RNA from between no-EV (Fractions 1–5) and EV-Enriched (Fractions 6–10) Plasma Compartments.

The different fractions were isolated from either pooled plasma (i.e., Pool A and B) or plasma from individual subjects (i.e., Subject 1 and 2).

(A) Percentage of input reads for each RNA pool/subject and kit/condition by fractions that were uniquely mapped (green), multimapped (black), or unmapped (gray) to the human genome using STAR.

(B) Percentage of input reads for each RNA pool/subject and kit/condition by plasma compartment that were quasimapped (green) or unmapped (gray) to the human transcriptome using salmon.

(C) Percentage of uniquely mapped read counts (light green bar in panel A) assigned to the human transcriptome using featureCounts for each RNA pool/subject and kit/condition by plasma compartment and represented by the following RNA species: protein coding (red), lncRNAs (yellow), non-coding RNAs (blue), pseudogenes (black), and other RNAs (including RNAs to be experimentally confirmed, immunoglobulin genes, and T cell receptor genes; green).

(D) Percentage of transcripts per kilobase million (TPM) quasimapped to the human transcriptome (light green bar in panel B) for each RNA pool/subject and kit/condition by plasma compartment and represented by the following RNA species: protein coding (red), lncRNAs (yellow), non-coding RNAs (blue), pseudogenes (black), and other RNAs (green).