Nucleic Acids Research Advance Access originally published online on May 7, 2007
Nucleic Acids Research 2007 35(Web Server issue):W265-W268; doi:10.1093/nar/gkm286
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Nucleic Acids Research, 2007, Vol. 35, No. suppl_2 W265-W268
© 2007 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
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LTR_FINDER: an efficient tool for the prediction of full-length LTR retrotransposons
T-Life Research Center, Fudan University, 220 HanDan Road, Shanghai, 200433, China
*To whom correspondence should be addressed. Tel: +86 21 65652305; +86 21 65643731; Fax: +86 21 65652305; Email: wangh8{at}fudan.edu.cn
Received January 14, 2007. Revised March 22, 2007. Accepted April 12, 2007.
Long terminal repeat retrotransposons (LTR elements) are ubiquitous eukaryotic transposable elements. They play important roles in the evolution of genes and genomes. Ever-growing amount of genomic sequences of many organisms present a great challenge to fast identifying them. That is the first and indispensable step to study their structure, distribution, functions and other biological impacts. However, until today, tools for efficient LTR retrotransposon discovery are very limited. Thus, we developed LTR_FINDER web server. Given DNA sequences, it predicts locations and structure of full-length LTR retrotransposons accurately by considering common structural features. LTR_FINDER is a system capable of scanning large-scale sequences rapidly and the first web server for ab initio LTR retrotransposon finding. We illustrate its usage and performance on the genome of Saccharomyces cerevisiae. The web server is freely accessible at http://tlife.fudan.edu.cn/ltr_finder/.
The authors wish it to be known that in their opinion, both the authors should be regarded as joint First Authors.
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