Environmental quality, developmental plasticity and the thrifty phenotype: a review of evolutionary models [0.03%]
环境质量、发展的可塑性及节俭型表型：进化模型综述
Jonathan C K Wells
Jonathan C K Wells
The concept of the thrifty phenotype, first proposed by Hales and Barker, is now widely used in medical research, often in contrast to the thrifty genotype model, to interpret associations between early-life experience and adult health stat...
Duhong Chen,Oliver Eulenstein,David Fernández-Baca et al.
Duhong Chen et al.
The utility of the matrix representation with flipping (MRF) supertree method has been limited by the speed of its heuristic algorithms. We describe a new heuristic algorithm for MRF supertree construction that improves upon the speed of th...
Topological bias in distance-based phylogenetic methods: problems with over- and underestimated genetic distances [0.03%]
基于距离的系统发生法中的拓扑偏差问题：遗传距离估计过高和过低的问题
Xuhua Xia
Xuhua Xia
I show several types of topological biases in distance-based methods that use the least-squares method to evaluate branch lengths and the minimum evolution (ME) or the Fitch-Margoliash (FM) criterion to choose the best tree. For a 6-species...
Michael Höhl,Isidore Rigoutsos,Mark A Ragan
Michael Höhl
We have developed an alignment-free method that calculates phylogenetic distances using a maximum-likelihood approach for a model of sequence change on patterns that are discovered in unaligned sequences. To evaluate the phylogenetic accura...
Mark Pagel
Mark Pagel
Multiple property tolerance analysis for the evaluation of missense mutations [0.03%]
用于错义突变评估的多属性容差分析方法
Tai-Sung Lee,Steven J Potts,Matthew J McGinniss et al.
Tai-Sung Lee et al.
Computational prediction of the impact of a mutation on protein function is still not accurate enough for clinical diagnostics without additional human expert analysis. Sequence alignment-based methods have been extensively used but their r...
Sèverine Bérard,François Nicolas,Jérôme Buard et al.
Sèverine Bérard et al.
Background: Variable minisatellites count among the most polymorphic markers of eukaryotic and prokaryotic genomes. This variability can affect gene coding regions, like in the prion protein gene, or gene regulation regio...
Chunfang Zheng,Qian Zhu,David Sankoff
Chunfang Zheng
Some genomes are known to have incurred a genome doubling (tetraploidization) event in their evolutionary history, and this is reflected today in patterns of duplicated segments scattered throughout their chromosomes. These duplications may...
Estimating the relative order of speciation or coalescence events on a given phylogeny [0.03%]
在给定的系统树上估算分化或共祖事件的大致顺序
Tanja Gernhard,Daniel Ford,Rutger Vos et al.
Tanja Gernhard et al.
The reconstruction of large phylogenetic trees from data that violates clocklike evolution (or as a supertree constructed from any m input trees) raises a difficult question for biologists-how can one assign relative dates to the vertices o...
The role of the phylogenetic diversity measure, PD, in bio-informatics: getting the definition right [0.03%]
谱系多样性测度PD在生物信息学中的作用：正确的定义很重要
Daniel P Faith
Daniel P Faith
A recent paper in this journal (Faith and Baker, 2006) described bio-informatics challenges in the application of the PD (phylogenetic diversity) measure of Faith (1992a), and highlighted the use of the root of the phylogenetic tree, as imp...