PPT-Lecture 18 – Species Tree Estimation

All these partitioned analyses of concatenated data sets make the assumption that all the genes share a common gene tree However there are several important reasons that phylogeny estimates from separate genes might be incongruent. g Gaussian so only the parameters eg mean and variance need to be estimated Maximum Likelihood Bayesian Estimation Non parametric density estimation Assume NO knowledge about the density Kernel Density Estimation Nearest Neighbor Rule brPage 3br CSC BioE. 598 . Algorithmic Computational Biology. Phylogenomics. Genome-scale evolution. The multi-species coalescent, and gene tree incongruence due to incomplete lineage sorting (ILS). Estimating species trees in the presence of ILS. John L. Eltinge. U.S. Bureau of Labor Statistics. Discussion for COPAFS/FCSM Session #6 December 4, 2012. Acknowledgements and Disclaimer. The author thanks David Banks, Paul . Biemer. , Moon Jung Cho, Larry Cox, Don . Leonid . Pishchulin. . . Arjun. Jain. . Mykhaylo. . Andriluka. Thorsten . Thorm¨ahlen. . Bernt. . Schiele. Max . Planck Institute for Informatics, . Saarbr¨ucken. , Germany. Introduction. Generation of novel training . estimating . species trees . from genome-scale data. Tandy Warnow. The University of Illinois. Orangutan. Gorilla. Chimpanzee. Human. From the Tree of the Life Website,. University of Arizona. Phylogeny. Ha Le and Nikolaos Sarafianos. COSC 7362 – Advanced Machine Learning. Professor: Dr. Christoph F. . Eick. 1. Contents. Introduction. Dataset. Parametric Methods. Non-Parametric Methods. Evaluation. Tandy Warnow. University of Illinois at Urbana-Champaign. Orangutan. Gorilla. Chimpanzee. Human. From the Tree of the Life Website,. University of Arizona. Phylogeny (evolutionary tree). Phylogenies and Applications. Joachim Bargsten. February 2012. Comparative . genomics. The study of the relationship of genome structure and function. across different biological species or strains. .. Why . should we do this?. How . Tandy Warnow. The University of Illinois at Urbana-Champaign. Orangutan. Gorilla. Chimpanzee. Human. From the Tree of the Life Website,. University of Arizona. Phylogeny. (evolutionary tree). DNA Sequence Evolution. Tandy Warnow. Departments of Bioengineering and Computer Science. http://. tandy.cs.illinois.edu. Course Details. Office hours: . To be determined. Course webpage: . http://tandy.cs.illinois.edu/598-. species trees . from genome-scale data. Tandy Warnow. The University of Illinois. Orangutan. Gorilla. Chimpanzee. Human. From the Tree of the Life Website,. University of Arizona. Phylogeny. (evolutionary tree). University of Illinois at Urbana-Champaign. http://. tandy.cs.Illinois.edu. Orangutan. Gorilla. Chimpanzee. Human. From the Tree of the Life Website,. University of Arizona. Species Tree. . Increasing molecular evidence indicates that hybridization is far more . common in animals than has traditionally been recognized. . A. B. C. D. Hybridization. A. B. C. D. A. B. C. D. Non-. Introgressed. Dr. Saadia Rashid Tariq. Quantitative estimation of copper (II), calcium (II) and chloride from a mixture. In this experiment the chloride ion is separated by precipitation with silver nitrate and estimated. Whereas copper(II) is estimated by iodometric titration and Calcium by complexometric titration .