UNION: An efficient mapping tool using UniMark with non-overlapping interval indexing strategy

Che Lun Hung*, Chun Yuan Lin, Yu Chen Hu

*此作品的通信作者

研究成果: Conference contribution同行評審

摘要

NGS has become a popular research field in biologists because it was able to produce inexpensive and accuracy short biology sequences very fast. NGS technique has been improved to produce long length sequences, more than 100bp, recently with the same quality, accuracy and speed. Thus, tools for short sequences may be not suitable for long length sequences. We propose a new tool called UNION for re-sequencing applications by mapping long length sequences to a reference genome. UNION uses the UniMarker with a non-overlapping interval indexing strategy and a tool, CORAL, to do sequence alignments. For the experiments we randomly cut ten thousands sequences with a length of 512bp from the genome of Trichomonas and also produce mutations/sequence errors for these sequences to simulate different similarities. UNION has been compared with GMAP in terms of speed and accuracy and achieves better performance than that of GMAP.

原文English
主出版物標題Database Theory and Application, Bio-Science and Bio-Technology -Int. Conf. DTA and BSBT 2011,Held as Part of the Future Generation Inf. Tech. Conf. FGIT 2011, in Conjunction. with GDC 2011,Proc.
頁面187-196
頁數10
DOIs
出版狀態Published - 2011
事件2011 Database Theory and Application,DTA 2011 and Bio-Science and Bio-Technology,BSBT 2011, Held as Part of the Future Generation Information Tech. Conf.FGIT 2011, in Conjunction with GDC 2011 - Jeju Island, Korea, Republic of
持續時間: 8 12月 201110 12月 2011

出版系列

名字Communications in Computer and Information Science
258 CCIS
ISSN(列印)1865-0929

Conference

Conference2011 Database Theory and Application,DTA 2011 and Bio-Science and Bio-Technology,BSBT 2011, Held as Part of the Future Generation Information Tech. Conf.FGIT 2011, in Conjunction with GDC 2011
國家/地區Korea, Republic of
城市Jeju Island
期間8/12/1110/12/11

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