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alt text [http://www.flickr.com/photos/59261391@N05/5475238349/][2] はしばらく前の議論に使った目安です。 現状はどうなんでしょうか?

Kato Kikuya Impact of the next generation DNA sequencers . Int J Clin Exp Med. 2009; 2(2): 193–202. Published online 2009 July 8. Comparison of sequencers (January, 2009). It should be noted that the throughput of each sequencer is improving rapidly

ABI 3730xI Roche GS FLX Illumina GA ABI SOLiD
Bases/template ∼1100 ∼400 ∼75 50
Templates/run 96 1,000,000 40,000,000 85,000,000
Data production/day 1 MB/day 400MB/run/7.5hr 3,000MB/run/6.5 days 4,000MB/run/6 days
Maximum samples 96 16 regions/plate 8 channels/flowcell 16chambers/2 slides
Sequence reaction Sanger method pyrosequencing Reverse terminator ligation sequencing

質問日 Feb 25 '11 at 14:48

okubo's gravatar image

okubo
1312913

edited Mar 01 '11 at 12:20


HiSeq約100bpくらいのリードの1レーンシングル分(1ファイル)で25~30GB、ペアエンド分(2ファイル)だとその2倍くらいです。1ラン8レーンなので400~480GBくらいでしょうか。

回答日 Feb 25 '11 at 14:57

na's gravatar image

na
161

edited Feb 25 '11 at 15:06

仲里 SRA 目次をみると 次世代といってもいろいろあるのがよくわかります。数値は実験数です。 経時展開できるともっといいんですけどね

Illumina Genome Analyzer II 19786
454 GS FLX 5815
Illumina Genome Analyzer 5191
Illumina HiSeq 2000 2873
454 Titanium 2799
GS FLX 709
unspecified 577
Illumina Genome Analyzer IIx 344
AB SOLiD System 3.0 339
454 GS FLX Titanium 309
Solexa 1G Genome Analyzer 268
AB SOLiD 4 System 265
AB SOLiD System 2.0 198
GS 20 164
AB SOLiD System 118
454 GS 20 118
Helicos HeliScope 16
454 GS 11
none 5
UNKNOWN 5
Total 39910
(experiments)

回答日 Feb 27 '11 at 13:32

okubo's gravatar image

okubo
1312913

edited Feb 27 '11 at 13:44

Platform Company Sequencing data per run (single read) 2 Kb – calculated multiplexing for50x coverage 1 Mb – calculatedmultiplexing for 50x coverage
GS Junior 454 Sequencing 40 MB 400 approx. 1
GS FLX 454 Sequencing 540 MB 5,400 11
MiSeq Illumina 510 MB 5,100 10
GA IIx Illumina 48,000 MB 480,000 960
HiSeq2000 Illumina 100,000 MB 1,000,000 2,000
SOLiD4 Life Technologies 150,000 MB 1,500,000 3,000
AB3730xl Life Technologies 0.08 MB

Table 1: Overview of the amount of data generated from currently available NGS platforms from the three largest competitors (based on manufacturer’s specifications) along with an estimate of thenumber of samples that could theoretically be analyzed during a single sequencing run. Next-generation Sequencing, Application in Molecular Diagnostics, M.Sc Stefan Kotschote et al., IMGM Laboratories 2011 - imgm.com

回答日 Feb 28 '11 at 22:10

okubo's gravatar image

okubo
1312913

Method Amplification Read length (base pairs) Templates per run Data production/day Sequence reaction Reference
ABI 3730xI PCR ~900 to 1,100 96 1 Mb/day Sanger method http://www.appliedbyosystems.com
454 FLX Roche Emulsion PCR ~400 1,000,000 400 Mb/run/7.5 to 8 hours Pyrosequencing http://www.rocheapplied-science.com
Illumina (Solexa) Genome Analyzer Bridge PCR 36 to 175 40,000,000 >17 Gb/run/3 to 6 days Reverse terminator http://www.illumina.com
ABI SOLiD Emulsion PCR ~50 85,000,000 10 to 15 Gb/run/6 days Ligation sequencing http://www.appliedbyosystems.com
Helicos Heliscope None 30 to 35 800,000,000 21 to 28 Gb/run/8 days Single molecule sequence by synthesis http://www.helicosbio.com

Next-generation sequencing, breast-cancer-research.comJ Reis-Filho - Breast Cancer Research, 2009

Technologies in development
Pacific Biosciences None >1,000 NA NA Single molecule real-time DNA sequencing http://www.pacificbiosciences.com
Intelligent Biosciences Yesa NA NA NA Sequence by synthesis http://www.intelligentbiosystems.com
Visigen Biotechnologies None NA NA NA Base-specific FRET emission http://www.visigenbio.com
ZS Genetics None NA NA NA ZSG atomic labelling and electron microscopy http://www.zsgenetics.com

回答日 Feb 28 '11 at 22:20

okubo's gravatar image

okubo
1312913

edited Mar 01 '11 at 13:30

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質問日: Feb 25 '11 at 14:48

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最終更新日: Mar 01 '11 at 13:30

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