2012 NGS Field Guide – Table 2b – Costs/run, cost/MB, minimum costs

Table 2b. Comparison of costs for all common commercially available 2nd and 3rd generation sequencing platforms, sorted by cost/MB.

Instrument Reagent Cost/runa Reagent Cost/MB Minimum Unit Cost (% run)b
3730xl (capillary) $144 $2308 $6 (1%)
PacBio RS $300-1700c $7-38 $500 (100%)
454 GS Jr. Titanium $1100 $22 $1500 (100%)
454 FLX Titanium $6,200 $12 $2000 (12%)
454 FLX+d $6,200 $7 $2000 (12%)
Ion Torrent – ‘314’ chip $350 $7 ~$750 (100%)
Ion Torrent – ‘316’ chip $550 $2 ~$1000 (100%)
Oxford Nanopore minion * ≤$900 $1 ~$1100 (10%)
Illumina MiSeq $1160 $1 ~$1400 (100%)
Ion Torrent – ‘318’ chip $750 $1 ~$1200 (100%)
Illumina GAIIx $17,575 $0.19 $3000 (14%)
Illumina iScanSQ $12,750 $0.09 $3000 (14%)
Ion Torrent – Proton I * $1000 $0.09 ? (100%)
SOLiD – 5500xl $10,503d <$0.07 $2000 (12%)
Illumina HiSeq 2500 – miniFC * ? ? ?
Illumina HiSeq 1000 $10,220 $0.04 $3000 (12%)
Illumina HiSeq 2000 $23,470d ≥$0.04 $3000 (6%)
Oxford Nanopore GridION 2000 * varies $0.03-0.04 ? (≤1%)
Oxford Nanopore GridION 8000 * varies $0.01-0.02 ? (≤1%)
Ion Torrent – Proton II * [$1000] [$0.01] ? (100%)

 

a
Includes all stages of sample prep. for a single sample (i.e., library prep through sequencing; capillary = sequencing only)

b
Typical full cost (i.e., including labor, service contract, etc.) of the smallest generally available unit of purchase at an academic core lab provider for the longest available read (and percentage of reads relative to a full run, rounded to the nearest whole percentage)

c
Library preps cost from $200-$1600 per sample, which can be used for 20 to 2 runs (circular consensus to strobed reads, respectively), thus the cost/MB from multiple runs/library is substantially less.

d
More reads are obtained than is needed from any single sample within most experiments, but the value illustrates the costs.

? = Detail not yet available

  • = Platform not yet released, values from company press releases is given; extrapolated author speculation [in brackets]