Genomic characterization of esophageal squamous cell carcinoma: Insights from next-generation sequencing

Table 1 Commercial next-generation sequencing platforms for human genome sequencing

	454 GS FLX	GAIIx	MiSeq	HiSeq 2500	SOLiD 5500	Ion PGM	Ion Proton	PacBio RS
						(318 chip)
Reads per run	1 M	150 M	50 M	6 G	1.4 G	5.5 M	60 M	50 K
Read length (bp)	700	2 × 150	2 × 150	2 × 100	2 × 50	400	200	250-10000
Output per run	700 Mb	90 Gb	15 Gb	600 Gb	120 Gb	2 Gb	12 Gb	200 Mb
Run time	24 h	14 d	55 h	10 d	7 d	5 h	3 h	2 h
Cost/Mb1	$10.00	$0.15	$0.50	$0.05	$0.10	$1.00	$0.08	$2.00
Advantage	Long read length	Widly used	Widly used	High-throughput, widly used	High-throughput, accuracy	Fast, flexible chip	High-throughput, fast	Long read length, fast
Disadvantage	Long hand-on time, low output	Long run time	Long run time	Long run time	Long run time, short read length	High error rate (homopolymer)	High error rate (homopolymer)	High error rate

¹Cost calculations are based on list price quotations obtained from the manufacturer. Mb: Megabase; Gb: Gigabase.