Dec 18 2008

NGS platforms overview

Tag: Misc., Technology — Goerlitz @ 13:46

Last update: November 25, 2009

We have elaborated on David Dooling’s original overview of some of the important metrics of the most prevalent High-Throughput Sequencing platforms.

  Roche Illumina ABI
Technology: 454 Solexa SOLiD
Platform: Junior GS 20 FLX Ti GA GA II GA IIx 1 2 3
Reads: 100 k 500 k 500 k 1 M 28 M 100 M 150 M 40 M 115 M 320 M
Fragment
Read length: 400 100 200 400 35 50 100 25 35 50
Run time: 12 hr 6 hr 7 hr 9 hr 3 d 3 d 4 d 6 d 5 d 8 d
Images: ? 11 GB 13 GB 27 GB 500 GB 1.1 TB 1.7 TB 1.8 TB 2.5 TB 1.9 TB
PA Disk: ? 3 GB 3 GB 15 GB 175 GB 300 GB 350 GB 300 GB 750 GB 1200 GB
PA CPU: ? 10 hr 140 hr 220 hr 100 hr 70 hr 100 hr NA NA NA
SRA: ? 500 MB 1 GB 4 GB 30 GB 50 GB 75 GB 100 GB 140 GB 600 GB
Fragment yield
Gigabases / run 0.035 0.05 0.1 0.5 1 5 15 1 4 16
Megabases / hour 2.92 8.3 14.3 55.6 13.9 69.4 156.3 6.9 33.3 83.3
Gigabases / week 0.5 1.4 2.4 9.3 2.3 11.7 26.3 1.2 5.6 14
Paired-end
Read length:   200 400 2×35 2×50 2×100 2×25 2×35 2×50
Insert:   3.5 kb 3.5 kb 200 b 200 b 200 b 3 kb 3 kb 3 kb
Run time:   7 hr 9 hr 6 d 10 d 10 d 12 d 10 d 16 d
Images:   13 GB 30 GB 1 TB 2.2 TB 3.4 TB 3.6 TB 5 TB 3.8 TB
PA Disk:   3 GB 15 GB 350 GB 500 GB 600 GB 600 GB 1.5 TB 2.4 TB
PA CPU:   140 hr 220 160 hr 120 hr 170 hr NA NA NA
SRA:   1 GB 4 GB 60 GB 100 GB 150 GB 200 GB 280 GB 1200 GB
Paired-end yield
Gigabases / run 0.1 0.5 2 9 30 2 8 32
Megabases / hour 14.3 55.6 13.9 37.5 125 13.9 66.7 166.7
Gigabases / week 2.4 9.3 2.3 6.3 21 2.3 11.2 28

This overview is a work in progress and will be updated as new and relevant technologies emerge.

You can find the original table here. As the original compilation, this work is openly available through an Attribution-Share Alike 3.0 Creative Commons license.

Dec 05 2008

Overview of High-Throughput Sequencing platforms

Tag: Technology — rforsberg @ 16:10

It can be quite overwhelming to keep oneself updated with the newest technological innovations in the field of  High-Throughput Sequencing. Which machines can do what - for example do you know which machines that can handle paired end data? Or has the highest yield per hour?

That is why we have elaborated on David Dooling’s excellent overview of some of the important metrics of the most prevalent High-Throughput Sequencing platforms.

You can find the published overview here:
Overview of High-Throughput Sequencing platforms

The original table is here