A cross-species alignment tool (CAT)

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	A cross-species alignment tool (CAT)
	Li, Heng; Guan, Liang; Liu, Tao; Guo, Yiran; Zheng, Wei-Mou; Wong, Gane Ka-Shu; Wang, Jun; Zheng, WM , Chinese Acad Sci, Beijing Inst Genom, Beijing 101300, Peoples R China
刊名	BMC BIOINFORMATICS
	2007
卷号	8 期号:1 页码:-
关键词	Genomic Dna Annotation Sequences Programs Database Search Blast
ISSN号	1471-2105
英文摘要	Background: The main two sorts of automatic gene annotation frameworks are ab initio and alignment-based, the latter splitting into two sub-groups. The first group is used for intra-species alignments, among which are successful ones with high specificity and speed. The other group contains more sensitive methods which are usually applied in aligning inter-species sequences. Results: Here we present a new algorithm called CAT ( for Cross-species Alignment Tool). It is designed to align mRNA sequences to mammalian-sized genomes. CAT is implemented using C scripts and is freely available on the web at http://xat.sourceforge.net/. Conclusions: Examined from different angles, CAT outperforms other extant alignment tools. Tested against all available mouse-human and zebrafish-human orthologs, we demonstrate that CAT combines the specificity and speed of the best intra-species algorithms, like BLAT and sim4, with the sensitivity of the best inter-species tools, like GeneWise.
学科主题	Physics
URL标识	查看原文
WOS记录号	WOS:000251410100001
公开日期	2012-08-02
内容类型	期刊论文
源URL	[http://ir.itp.ac.cn/handle/311006/5659]
专题	理论物理研究所_理论物理所1978-2010年知识产出
通讯作者	Zheng, WM , Chinese Acad Sci, Beijing Inst Genom, Beijing 101300, Peoples R China
推荐引用方式 GB/T 7714	Li, Heng,Guan, Liang,Liu, Tao,et al. A cross-species alignment tool (CAT)[J]. BMC BIOINFORMATICS,2007,8(1):-.
APA	Li, Heng.,Guan, Liang.,Liu, Tao.,Guo, Yiran.,Zheng, Wei-Mou.,...&Zheng, WM , Chinese Acad Sci, Beijing Inst Genom, Beijing 101300, Peoples R China.(2007).A cross-species alignment tool (CAT).BMC BIOINFORMATICS,8(1),-.
MLA	Li, Heng,et al."A cross-species alignment tool (CAT)".BMC BIOINFORMATICS 8.1(2007):-.