Illumina MiSeq and IonTorrent PGM Technology and Price Comparison
Apart from performance, it is also good to know about price and tech. spec. differences – a much easier aspects of NGS sequencing technology comparisons. As smaller labs have started thinking about using NGS sequencing, learning about the costs and tech specs of different sequencing technologies is often the first step. Loman et. al and Quail et. al. have presented a nice comparison of price and technical specifications for the current NGS sequencing machines by sequencing bacterial genomes.
Both Loman et. al and Quail et. al compared the NGS sequencing technologies available as of Dec. 2011. Indeed, some aspects of the price comparison does differ and will be slightly different. Here is a brief summary of the pricing and sequencing capability comparisons done by Loman et. al. and Quail. et. al.
Loman et. al. performed a detailed comparison of 454 GS Junior, Ion Torrent PGM, and Illumina MiSeq- the current benchtop next-gen sequencers by sequencing E.Coli.
|Next-Gen Sequencer||Machine Cost||Cost per run||Minimum Throughput||Sequencing Run Time||Cost Per Mb|
|Illumina MiSeq||$125,000||$750||1500 Mb (2 x 150 Bases)||27 Hours||$0.5|
|454 GS Junior||$108,000||$1,100||35 Mb (400 Bases)||8 Hours||$31|
|Ion Torrent PGM – 314 Chip||$80,490||$225||10Mb (100 Bases)||3 Hours||$22.5|
|Ion Torrent PGM – 316 Chip||$80,490||$425||100Mb||3 Hours||$4.25|
|Ion Torrent PGM – 318 Chip||$80,490||$625||1000Mb||3 Hours||$0.63|
|Machine Cost||Throughput Per Run||Sequencing Cost per Gb||Sequencing Run Time||Observed Error rate|
|Illumina MiSeq||$128,000||1.5-2 Gb||$502||27 Hours||0.8%|
|PacBio RS||$695,000||100 Mb||$2000||2 Hours||12.86%|
|Ion Torrent -318 Chip||$80,000||1Gb||$1000||2 Hours||1.71%|
|Illumina GAIIx||$256,000||30 Gb||$148||10 Days||0.76%|
|Illumina HiSeq 2000||$654,000||600 Gb||$41||11 Days||0.26%|
Don’t let this data fool you though, as you may at first glance look at PacBio and rule it out for your laboratory. But take into account the read length of PacBio of an outstanding 10-15kb compared to the 100bp of MiSeq and you’ll understand why…..
So what does that mean?
A long read length has multiple benefits including: isoform identification and detection, copy number variation, microsatellite identification and ultimately you can see what is shared on a single molecule. I believe over 80% of the current NGS market is Illumina which is saying something….Which platform would you choose?