3  Nano sequencing

3.1 But how scalable is NanoSeq?

• The authors wanted high confidence variant calling 665 average duplex coverage or 21,000 raw coverage was enough to find true variants that appeared just one time → down to average 0.15% VAF

• Mouse CHIP panel = 40kbp

• 4e4 bp per sample * 2.1e4 raw coverage per bp = 8.4e7 cycles per sample

• 8.4e7 cycles per sample / 300 cycles per paired end read = 2.8e6 reads per sample

• 2.8e6 reads per sample / 0.7 capture efficiency = 4e6 reads/sample

• 6,000 - 7,000 samples on a single 25B flow cell

• Library cost per sample → 32 dollars

• $20,000 flow cell → 3 dollars per sample

• 35 dollars per sample