This class was supposed to be made with student’s presentation. Only one student fulfilled the requirement: Atakan Ayden
Atakan focused on PacBio. The most important ideas of his talk are:
- PacBio model RS II produces average read lengths over 10 kb, with an N50 of more than 20 kb and maximum read lengths over 60 kb
- Error rate of a continuous long read is relatively high (around 11%–15%)
- The error rate can be reduced by generating circular consensus sequences reads with sufficient sequencing passes.
He also showed the following table, which is exactly what we are looking for:
| Method | Generation | Read length (bp) Single pass | error rate (%) | No. of reads per run | Time per run | Cost per million bases (USD) |
|---|---|---|---|---|---|---|
| Sanger ABI 3730x1 | 1st | 600-1000 | 0.001 | 96 | 0.5 - 3 h | 500 |
| Illumina HiSeq 2500 (Rapid Run) | 2nd | 2 x 250 | 0.1 | 1.2 x 109 (paired) | 1 - 6 days | 0.04 |
| PacBio RS II: P6-C4 | 3rd | 1.0–1.5 x 104 on average | 13 | 3.5–7.5 x 104 | 0.5 - 4 h | 0.4 - 0.8 |
| Oxford Nanopore MinION | 3rd | 2–5 x 103 on average | 38 | 1.1–4.7 x 104 | 50 h | 6.44 - 17.9 |
For more details check the original slides.