权益分类	功能权益	普通用户	{{item.name}}会员
{{category.name}}	{{benefitItem.name}}

Extending Bayesian Phylogenetic Analysis

扩展贝叶斯系统发育分析

基本信息

批准号：
8372388
负责人：
John P. HUELSENBECK
金额：
$ 28.01万
依托单位：
UNIVERSITY OF CALIFORNIA BERKELEY
依托单位国家：
美国
项目类别：
财政年份：
2004
资助国家：
美国
起止时间：
2004-08-01 至 2014-11-30
项目状态：
已结题

来源：
https://reporter.nih.gov/project-details/8372388
关键词：
Accounting Algorithms Amino Acids Applications Grants Bacterial Genome Bayesian Analysis Beryllium Biology Complex Computational Biology Computer software DNA Sequence DNA Sequence Analysis Data Elements Evolution Free Energy Gene Expression Genes Genetic Drift Genome Genomics Goals Grouping Horizontal Gene Transfer Learning Markov Chains Methodology Methods Mind Minority Modeling Monte Carlo Method NCI Scholars Program Natural Selections Organism Paper Pattern Phylogenetic Analysis Phylogeny Process Proteins RNA Recording of previous events Recruitment Activity Regulation Relative (related person)Research Research Project Grants Scientist Shapes Stretching Structure Students Training Support Trees Work comparative comparative genomics computer program design gene function genome analysis genome sequencing improved innovation interest next generation programs protein structure prediction public health relevance

项目摘要

DESCRIPTION (provided by applicant): For genomic analyses of bacterial genomes, horizontal gene transfer is a complicating factor, causing different genes to have discordant histories. I plan to develop methods for estimating bacterial species phylogeny in the face of this horizontal gene transfer. I will also develop methods that allow the biologist to uncover patterns in the data, by grouping together genes that have similar realized values of evolutionary parameters. Finally, I will develop more realistic models of protein evolution that take advantage of the most cutting-edge work for the ab initio prediction of protein structure. Using the same statistical framework, I will attempt to predict RNA secondary structure by combining information on the Gibb's free energy with comparative sequence information. The methods developed in the course of this research will be implemented in the next generation of the MrBayes software. 1

描述（由申请人提供）：对于细菌基因组的基因组分析，水平基因转移是一个复杂的因素，导致不同的基因具有不一致的历史。我计划开发方法来评估细菌物种的水平基因转移的遗传。我还将开发一些方法，通过将具有相似进化参数实现值的基因分组在一起，使生物学家能够揭示数据中的模式。最后，我将开发更现实的蛋白质进化模型，利用最前沿的工作，从头预测蛋白质结构。使用相同的统计框架，我将尝试预测RNA二级结构的吉布斯自由能与比较序列信息相结合的信息。本研究过程中开发的方法将在下一代MrBayes软件中实现。1

项目成果

期刊论文数量（32）

专著数量（0）

科研奖励数量（0）

会议论文数量（0）

专利数量（0）

Comment on "Phylogenetic MCMC algorithms are misleading on mixtures of trees".

对“系统发育 MCMC 算法对树的混合物具有误导性”的评论。

DOI：
10.1126/science.1123622
发表时间：
2006
期刊：
Science (New York, N.Y.)
影响因子：
0
作者：
Ronquist,Fredrik;Larget,Bret;Huelsenbeck,JohnP;Kadane,JosephB;Simon,Donald;vanderMark,Paul
通讯作者：
vanderMark,Paul

Strepsiptera, phylogenomics and the long branch attraction problem.

DOI：
10.1371/journal.pone.0107709
发表时间：
2014
期刊：
PloS one
影响因子：
3.7
作者：
Boussau B;Walton Z;Delgado JA;Collantes F;Beani L;Stewart IJ;Cameron SA;Whitfield JB;Johnston JS;Holland PW;Bachtrog D;Kathirithamby J;Huelsenbeck JP
通讯作者：
Huelsenbeck JP

Probabilistic graphical model representation in phylogenetics.

系统发育学中的概率图形模型表示。