Umap: Use Unique Sequence for Alignment of Short Sequence Reads and SNP Detection

摘要：

Many high-throughput DNA sequencing methods provide very short reads, typically of a few tens of base pairs. New algorithms and softwares are needed to analysis those short reads effectively. There are some software tools for aligning short reads to a reference genome. Here we introduce a new method, Umap, to align theses short reads faster and more exact. Applying Umap to simulated very short reads generated by slicing human genome chromosome 22 into reads of length 20~100, one can identify 95% of the simulated reads’ relative position. When applying to real Illumine Sequence Analyzer data sets without read pairs, Umap identify 85% of the whole reads’ relative position to a Streptococcus suis genome. Umap presents a new approach to alignment short reads to reference genome quickly.

作者: Zhi-Yuan Lu Jian-Ming Xie Xiao Sun

作者单位: State Key Laboratory of Bioelectronics, School of Biological Science and Medical Engineering, Southe State Key Laboratory of Bioelectronics, School of Biological Science and Medical Engineering, Southe

会议类型: 国际会议

会议名称: The 4th International Conference on Bioinformatics and Biomedical Engineering(第四届IEEE生物信息与生物医学工程国际会议 iCBBE 2010)

会议地点: 成都

会议语种:英文

页码: 1-4

在线出版日期: 2010-06-18（万方平台首次上网日期，不代表论文的发表时间）