Table 3 Sequencing cost estimates at increasing matrix sizes using four commercial systems. Estimated raw sequencing cost using flow cells and list prices in Table 2 and calculated for conventional individual sequencing and double-batched sequencing at increasing scale; shown at four different target coverages. The estimates are all based on the 113-gene panel. Experiments indicate the number of full setups that can be run on flow cell
From: Combinatorial batching of DNA for ultralow-cost detection of pathogenic variants
100X panel coverage/n | 200X panel coverage/n | 400X panel coverage/n | 800X panel coverage/n | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Setup | System (flow cell) | Cost/n | Cost prop. | Experiments | Cost/n | Cost prop. | Experiments | Cost/n | Cost prop. | Experiments | Cost/n | Cost prop. | Experiments |
n = 1 (individual) | NextSeq (Mid Output) | 104 USD | ref. | n=2978 | 106 USD | ref. | n=1489 | 110 USD | ref. | n=744 | 118 USD | ref. | n=372 |
NovaSeq (SP) | 103 USD | ref. | n=5955 | 104 USD | ref. | n=2978 | 106 USD | ref. | n=1489 | 109 USD | ref. | n=744 | |
NovaSeq (S2) | 103 USD | ref. | n=29,777 | 103 USD | ref. | n=14,888 | 104 USD | ref. | n=7444 | 106 USD | ref. | n=3722 | |
NovaSeq (S4) | 103 USD | ref. | n=74,442 | 103 USD | ref. | n=37,221 | 103 USD | ref. | n=18,610 | 104 USD | ref. | n=9,305 | |
n = 100 (10×10 matrix) | NextSeq (Mid Output) | 22 USD | 21% | n=30 | 24 USD | 23% | n=15 | 28 USD | 26% | n=7 | 36 USD | 31% | n=4 |
NovaSeq (SP) | 21 USD | 21% | n=60 | 22 USD | 21% | n=30 | 24 USD | 23% | n=15 | 27 USD | 25% | n=7 | |
NovaSeq (S2) | 21 USD | 20% | n=298 | 21 USD | 21% | n=149 | 22 USD | 21% | n=74 | 24 USD | 22% | n=37 | |
NovaSeq (S4) | 21 USD | 20% | n=744 | 21 USD | 20% | n=372 | 21 USD | 21% | n=186 | 22 USD | 21% | n=93 | |
n = 576 (24×24 matrix) | NextSeq (Mid Output) | 10 USD | 10% | n=5 | 12 USD | 12% | n=3 | 16 USD | 15% | n=1 | 24 USD | 20% | n=1 |
NovaSeq (SP) | 9 USD | 9% | n=10 | 10 USD | 10% | n=5 | 12 USD | 11% | n=3 | 15 USD | 14% | n=1 | |
NovaSeq (S2) | 9 USD | 9% | n=52 | 9 USD | 9% | n=26 | 10 USD | 10% | n=13 | 12 USD | 11% | n=6 | |
NovaSeq (S4) | 9 USD | 9% | n=129 | 9 USD | 9% | n=65 | 9 USD | 9% | n=32 | 10 USD | 10% | n=16 | |
n = 2304 (48×48 matrix) | NextSeq (Mid Output) | 6 USD | 6% | n=1 | 8 USD | 8% | n=1 | 12 USD | 11% | n=0 | 20 USD | 17% | n=0 |
NovaSeq (SP) | 5 USD | 5% | n=3 | 6 USD | 6% | n=1 | 8 USD | 7% | n=1 | 11 USD | 10% | n=0 | |
NovaSeq (S2) | 5 USD | 5% | n=13 | 5 USD | 5% | n=6 | 6 USD | 6% | n=3 | 8 USD | 7% | n=2 | |
NovaSeq (S4) | 5 USD | 4% | n=32 | 5 USD | 5% | n=16 | 5 USD | 5% | n=8 | 6 USD | 6% | n=4 | |
n = 5184 (72×72 matrix) | NextSeq (Mid Output) | 5 USD | 5% | n=1 | 7 USD | 6% | n=0 | 11 USD | 10% | n=0 | 18 USD | 16% | n=0 |
NovaSeq (SP) | 4 USD | 4% | n=1 | 5 USD | 4% | n=1 | 6 USD | 6% | n=0 | 10 USD | 9% | n=0 | |
NovaSeq (S2) | 3 USD | 3% | n=6 | 4 USD | 4% | n=3 | 4 USD | 4% | n=1 | 6 USD | 6% | n=1 | |
NovaSeq (S4) | 3 USD | 3% | n=14 | 3 USD | 3% | n=7 | 4 USD | 4% | n=4 | 5 USD | 5% | n=2 | |
n = 9216 (96×96 matrix) | NextSeq (Mid Output) | 4 USD | 4% | n=0 | 6 USD | 6% | n=0 | 10 USD | 9% | n=0 | 18 USD | 15% | n=0 |
NovaSeq (SP) | 3 USD | 3% | n=1 | 4 USD | 4% | n=0 | 6 USD | 5% | n=0 | 9 USD | 8% | n=0 | |
NovaSeq (S2) | 3 USD | 2% | n=3 | 3 USD | 3% | n=2 | 4 USD | 4% | n=1 | 5 USD | 5% | n=0 | |
NovaSeq (S4) | 2 USD | 2% | n=8 | 3 USD | 3% | n=4 | 3 USD | 3% | n=2 | 4 USD | 4% | n=1 | |