Artificial duplicate reads in sequencing data of 454 Genome Sequencer FLX System

被引：16

作者：

Dong, Hui ^{[1
]}

Chen, Yangyi ^{[2
]}

Shen, Yan ^{[2
]}

Wang, Shengyue ^{[1
]}

Zhao, Guoping ^{[1
,2
]}

Jin, Weirong ^{[1
,2
]}

机构：

[1] Chinese Natl Human Genome Ctr Shanghai, Shanghai 201203, Peoples R China

[2] Natl Engn Ctr Biochip Shanghai, Shanghai 201203, Peoples R China

来源：

ACTA BIOCHIMICA ET BIOPHYSICA SINICA | 2011年 / 43卷 / 06期

关键词：

duplicate reads; 454 GS FLX System; emulsion PCR;

D O I：

10.1093/abbs/gmr030

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

The 454 Genome Sequencer (GS) FLX System is one of the next-generation sequencing systems featured by long reads, high accuracy, and ultra-high throughput. Based on the mechanism of emulsion PCR, a unique DNA template would only generate a unique sequence read after being amplified and sequenced on GS FLX. However, biased amplification of DNA templates might occur in the process of emulsion PCR, which results in production of artificial duplicate reads. Under the condition that each DNA template is unique to another, 3.49%-18.14% of total reads in GS FLX-sequencing data were found to be artificial duplicate reads. These duplicate reads may lead to misunderstanding of sequencing data and special attention should be paid to the potential biases they introduced to the data.

引用

页码：496 / 500

页数：5

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