Facilitating Maximum Likelihood Estimation of Phylogenetic Trees from Nucleotide Sequences

促进从核苷酸序列进行系统发育树的最大似然估计

• 批准号: 9628835
• 负责人: James Rogers
• 金额: $ 4万
• 依托单位: University of New Orleans
• 依托单位国家: 美国
• 项目类别: Standard Grant
• 财政年份: 1996
• 资助国家: 美国
• 起止时间: 1996-09-01 至 2000-08-31
• 项目状态: 已结题
• 来源: https://www.nsf.gov/awardsearch/showAward?AWD_ID=9628835&HistoricalAwards=false
• 关键词: Facilitating; Maximum; Likelihood; Estimation; Phylogenetic

9628835 ROGERS The recent rapid increase in the use of DNA data for estimating phylogenetic or genealogical relationships of genes and organisms has focused attention on the efficiency of various methods for doing this. Several studies have demonstrated that a method known as "maximum likelihood" is often equal or superior to other methods for finding correct relationships. Maximum likelihood, however, has been hampered by the extreme slowness of the computer programs for its implementation. Other doubts regarding its usefulness have also been raised. Preliminary studies have shown that maximum likelihood computer programs may be speeded up considerably by using fast approximate methods. These studies have also indicated that other supposed problems of maximum likelihood may not be serious. In this study, James S. Rogers, in collaboration with David L. Swofford of the Laboratory of Molecular Systematics, Smithsonian Institution, will evaluate these aspects of maximum likelihood. Useful methods that result from the proposed studies will be incorporated into subsequent revisions of PAUP*, Swofford's widely used software package for phylogenetic analysis.

9628835 ROGERS 最近，DNA 数据用于估计基因和生物体的系统发育或谱系关系的使用迅速增加，这引起了人们对各种方法的效率的关注。 多项研究表明，一种称为“最大似然”的方法在寻找正确关系方面通常等于或优于其他方法。 然而，最大似然性由于计算机程序执行速度极慢而受到阻碍。 对其有用性也提出了其他质疑。 初步研究表明，使用快速近似方法可以大大加快最大似然计算机程序的速度。 这些研究还表明，其他假定的最大可能性问题可能并不严重。 在这项研究中，James S. Rogers 与史密森学会分子系统学实验室的 David L. Swofford 合作，将评估这些方面的最大可能性。 拟议研究产生的有用方法将被纳入 PAUP* 的后续修订版中，PAUP* 是 Swofford 广泛使用的系统发育分析软件包。