Unofficial guide to sequencing
Next-generation sequencing technologies are being updated constantly so sometimes it is hard to choose the technology that is best for your research. Below we’ve collected an unofficial table to help compare the instruments that were current at the beginning of 2016.
*Note: We assembled this list from experience, vendor sites, other cores, and word-of-mouth. Please let us know if you find any errors.
YesYes
Illumina | IonTorrent | PacBio | ||||||
---|---|---|---|---|---|---|---|---|
Instrument | MiSeq | NextSeq | HiSeq | PGM | S5 | Proton | RS II | Sequel System* |
Technology Strength | Sequencing depth | Combination | Read length | |||||
Available at V. Core ? | YES | |||||||
Total Workflow Time | ~2-5 days | ~3 days | ~8 days | ~3 days | ~3-4 days | ~2 days | ~1 day | |
Typical Price per library prep | $172 | >$147 | >$155 | $206 | $206 | $172 | >$309 | |
Typical Price per run | $823 – $1,750 | >$1,143 | $913 – $2,449 | $1,339 | $1,339-1,715 | $1,199 | $699 | |
Read length of output (bp) | 300 | 75-300 | 36 – 250 | 200-400 | 200-600 | 200 | >20,000 | >20,000 |
# of reads per run | 25M | 130-400M | 300M – 4B | 4 – 5.5M | 15 – 80M | 60 – 80M | 0.055M | 0.385M |
Sequencing time (h) | ~56 | ~11-29 | ~144 | 7 | 7 – 22 | 2 – 4 | 0.5 – 4 | 0.5 – 6 |
Data size of output (GB) | 15 | 16-120 | 9 – 1000 | 1.2 – 2 | 6 – 15 | 10 | 0.5 – 1 | 3.5 – 7 |
Uses amplification of template ? | Yes | Yes | Yes | Yes | Yes | Yes | No | No |
*introduced Sep 2015
References:
Miseq: http://www.illumina.com/systems/miseq.html , http://www.illumina.com/systems/miseq/performance_specifications.html
NextSeq: http://www.illumina.com/systems/nextseq-sequencer.html
Hiseq2000: http://www.illumina.com/Documents/systems/hiseq/datasheet_hiseq_systems.pdf
PGM: https://tools.thermofisher.com/content/sfs/brochures/PGM-Specification-Sheet.pdf
S5: https://www.thermofisher.com/us/en/home/life-science/sequencing/next-generation-sequencing/ion-torrent-next-generation-sequencing-workflow/ion-torrent-next-generation-sequencing-run-sequence/ion-s5-ngs-targeted-sequencing/ion-s5-specifications.html
Proton: https://tools.thermofisher.com/content/sfs/brochures/CO06326_Proton_Spec_Sheet_FHR.pdf
RS II: http://www.pacb.com/wp-content/uploads/2015/09/PacBio_RS_II_Brochure.pdf
Sequel: http://www.pacb.com/wp-content/uploads/2015/09/Revolutionize-Genomics-with-SMRT-Sequencing.pdf
Others’ comparison of different sequencing technologies:
http://www.biomedcentral.com/1471-2164/15/96
http://www.nature.com/news/next-generation-genome-sequencers-compared-1.10497