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Jackknife and Bootstrap Tests of the Composition Vector Trees
  • ISSN号：1672-0229
  • 期刊名称：《基因组蛋白质组与生物信息学报：英文版》
  • 时间：0
  • 分类：S718.49[农业科学—林学] O212.1[理学—概率论与数理统计;理学—数学]
  • 作者机构：[1]T-Life Research Center & Department of Physics, Fudan University, Shanghai 200433, China, [2]Shanghai Institute of Applied Physics, Chinese Acadamy of Sciences, Shanghai 201800, China, [3]Applied Biosystems, Inc., Beijing 100027, China, [4]Fudan-VARI Center for Genetic Epidemiology, Fudan University, Shanghai 200433, China, [5]Institute of Theoretical Physics, Chinese Acadamy of Sciences, Beijing 100190, China, [6]Santa Fe Institute, Santa Fe, NM 87505, USA
  • 相关基金：supported by the National Basic Research Program of China （the 973 Program Grant No. 2007CB814800）; the Shanghai Leading Academic Discipline Project （Grant No. B111）
作者： Guanghong Zuo[1,2] Zhao Xu[1,3] Hongjie Yu[1,4] Bailin Hao[1,5,6]
关键词： BOOTSTRAP, 矢量, 组分, 检验, 树木分类, 系统发育树, 亲缘关系, 全基因, composition vector, phylogeny, topological distance, bootstrap, jackknife, CVTree
中文摘要：

作文向量树(CVTrees ) 被一个没有排列、没有参数的方法从整个染色体的数据推断。有相应分类的这些树的协议在这个工作提供推断的发展史的一个客观理由，我们证明由表现的 CVTrees 的稳定性和自我一致性自举并且大折刀重新采样测试适应了这条没有排列的途径。我们的最终的目标是倡导费时间的统计重新采样测试根本能在使用这条没有排列的途径被避免的观点。对分类的同意应该作为一个主要标准被拿估计原核生物的种系发生的树。

英文摘要：

Composition vector trees （CVTrees） are inferred from whole-genome data by an alignment-free and parameter-free method. The agreement of these trees with the corresponding taxonomy provides an objective justification of the inferred phylogeny. In this work, we show the stability and self-consistency of CVTrees by performing bootstrap and jackknife re-sampling tests adapted to this alignment-free approach. Our ultimate goal is to advocate the viewpoint that time-consuming statistical re-sampling tests can be avoided at all in using this alignment-free approach. Agreement with taxonomy should be taken as a major criterion to estimate prokaryotic phylogenetic trees.

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期刊信息
  • 《基因组蛋白质组与生物信息学报：英文版》
  • 主管单位:中国科学院
  • 主办单位:中科院北京基因组研究所
  • 主编：
  • 地址：北京市朝阳区北土城西路7号中科院北京基因组研究所
  • 邮编：100029
  • 邮箱：editor@big.ac.cn
  • 电话：010-82995372
  • 国际标准刊号：ISSN：1672-0229
  • 国内统一刊号：ISSN：11-4926/Q
  • 邮发代号:82-557
  • 获奖情况:
  • 国内外数据库收录:
  • 俄罗斯文摘杂志,美国化学文摘（网络版）,波兰哥白尼索引,荷兰文摘与引文数据库,荷兰医学文摘,美国生物医学检索系统,美国剑桥科学文摘,美国生物科学数据库
  • 被引量:52