ProbCons: Probabilistic consistency-based multiple sequence alignment
ProbCons: Probabilistic consistency-based multiple sequence alignment
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DOI：
10.1101/gr.2821705
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发表时间：
2005-02-01
期刊：
影响因子：
7
通讯作者：
Batzoglou, S
中科院分区：
文献类型：
--
作者：
Do, CB;Mahabhashyam, MSP;Batzoglou, S
为了研究广泛生物的基因进化，生物学家需要精确的工具来对蛋白质家族的多个序列进行比对。然而，获得准确的比对是一个困难的计算问题，因为不仅计算成本高，而且缺乏适当的目标函数来衡量比对质量。在本文中，我们引入了一种新的多序列比较评分函数--概率一致性。提出了一种实用的基于OIL概率一致性的渐进蛋白质多序列比对工具ProbCons，并在几个标准比对基准数据集上对其性能进行了评估。在BAHBASE、SABmark和预制基准比对数据库上，ProbCons在保持实际速度的同时，实现了与其他领先方法相比的统计上的显著改进。ProbCons以Web资源的形式公开提供。
To study gene evolution across a wide range of organisms, biologists need accurate tools for Multiple sequence alignment of protein families. Obtaining accurate alignments, however, is a difficult computational problem because of not only the high computational cost but also the lack of proper objective functions for measuring alignment quality. In this paper, we introduce probabilistic consistency, a novel scoring function for multiple sequence comparisons. We present ProbCons, a practical tool for progressive protein multiple sequence alignment based oil probabilistic consistency, and evaluate its performance on several standard alignment benchmark data sets. On the BAHBASE, SABmark, and PREFAB benchmark alignment databases, ProbCons achieves statistically significant improvement over other leading methods while maintaining practical speed. ProbCons is publicly available as a Web resource.