Figure 2.
Sample figures for Module 1 analyses. (A) The V gene usage for donor CAP256 at 59 weeks post-infection (SRA ascension SRX395942). cDNA was amplified with VH3 family-specific primers; the peak for VH3-30 is from the expansion of the CAP256-VRC26 lineage. (B) The J gene usage for the same dataset. The CAP256-VRC26 lineage uses JH3. (C) The status assigned to each transcript in this dataset by SONAR. Approximately 30% of the transcripts are identified as containing in-dels (light green), which is typical for uncorrected 454 data. Approximately 60% are high-quality transcripts (dark purple), but only ~2% of these (~3% overall) are non-redundant at the 97% threshold (light purple). (D) CDR H3 length distribution (in amino acids, IMGT delineation) for all nine donor CAP256 time points. The CAP256-VRC26 lineage can be seen in the peak at 37 amino acids, which first appears at the 34 weeks post-infection time point.