CREx：基于共同区间推断基因组重排。
CREx: inferring genomic rearrangements based on common intervals.
作者信息
Bernt Matthias, Merkle Daniel, Ramsch Kai, Fritzsch Guido, Perseke Marleen, Bernhard Detlef, Schlegel Martin, Stadler Peter F, Middendorf Martin
机构信息
Parallel Computing and Complex Systems Group, University of Leipzig, Fraunhofer Institute IZI, Leipzig, Germany.
出版信息
Bioinformatics. 2007 Nov 1;23(21):2957-8. doi: 10.1093/bioinformatics/btm468. Epub 2007 Sep 25.
SUMMARY
We present the web-based program CREx for heuristically determining pairwise rearrangement events in unichromosomal genomes. CREx considers transpositions, reverse transpositions, reversals and tandem-duplication-random-loss (TDRL) events. It supports the user in finding parsimonious rearrangement scenarios given a phylogenetic hypothesis. CREx is based on common intervals, which reflect genes that appear consecutively in several of the input gene orders.
AVAILABILITY
CREx is freely available at http://pacosy.informatik.uni-leipzig.de/crex
摘要
我们展示了基于网络的程序CREx，用于启发式地确定单染色体基因组中的成对重排事件。CREx考虑转座、反向转座、倒位和串联重复-随机缺失（TDRL）事件。在给定系统发育假设的情况下，它支持用户找到简约的重排方案。CREx基于共同区间，共同区间反映了在几个输入基因顺序中连续出现的基因。
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