'Species tree' presentation slideshows

Computational Phylogenomics and Metagenomics

1.86k views • 173 slides

New HMM-based methods for Ultra-large Alignment and Phylogeny Estimation

New HMM-based methods for Ultra-large Alignment and Phylogeny Estimation. Tandy Warnow Departments of Bioengineering and Computer Science The University of Illinois at Urbana-Champaign http:// tandy.cs.illinois.edu. Phylogenies and Applications. Basic Biology: How did life evolve?

1.2k views • 100 slides

New methods for estimating species trees from gene trees

New methods for estimating species trees from gene trees. Tandy Warnow March 12, 2012. Phylogeny (evolutionary tree). Orangutan. Human. Gorilla. Chimpanzee. From the Tree of the Life Website, University of Arizona. -3 mil yrs. AAGACTT. AAGACTT. -2 mil yrs. AAG G C C T. AAGGCCT.

1.09k views • 88 slides

The Mathematics of Estimating the Tree of Life

573 views • 57 slides

Theoretical and Empirical Advances in Species Tree Estimation

Theoretical and Empirical Advances in Species Tree Estimation. Tandy Warnow The University of Illinois. This talk. Originally focused on species tree estimation, taking gene tree heterogeneity into account

573 views • 57 slides

Molecular phylogenetics

Molecular phylogenetics. Xuhua Xia xxia@uottawa.ca http://dambe.bio.uottawa.ca. Major Research Themes in XiaLab. Molecular phylogenetics Optimization at cellular and molecular level Genome replication, Transcription, Translation How to accomplish these processes efficiently?

862 views • 54 slides

Gene tree discordance and multi-species coalescent models

Mike DeGiorgio. Randa Tao. Gene tree discordance and multi-species coalescent models. Noah Rosenberg December 21, 2007. James Degnan. David Bryant. Gene trees and species trees. Different genes may produce different inferences about species relationships. T 2. T 3.

712 views • 52 slides

Michael Matschiner University of Zurich @m_matschiner evoinformatics.eu

Accuracy and precision of phylogenomic divergence-time estimates. Michael Matschiner University of Zurich @m_matschiner www.evoinformatics.eu. Accuracy and precision of phylogenomic divergence-time estimates. Michael Matschiner University of Zurich @m_matschiner www.evoinformatics.eu.

503 views • 49 slides

Detecting horizontal gene transfers using discrepancies in species and gene classifications

497 views • 49 slides

Phylogeny

722 views • 44 slides

MBI 2005 Workshop in Phylogenetics and Phylogeography

MBI 2005 Workshop in Phylogenetics and Phylogeography. Perspective an empiricist (and bird watcher!) Enthusiastic producer of DNA sequence data unabashed consumer of computational analysis packages Allele frequency approaches to population structure

807 views • 37 slides

Phylogeny

416 views • 32 slides

Construction of Genome Trees from Conservation Profiles of Proteins

418 views • 32 slides

Department of Computer Science University of Texas at Austin

Estimating Species Tree from Gene Trees by Minimizing Duplications. Md. Shamsuzzoha Bayzid, Siavash Mirarab, Tandy Warnow. Department of Computer Science University of Texas at Austin. Contents. Background Our Contributions Future Work. Gene trees and species tree.

361 views • 30 slides

Species tree phylogenetics of a clade of Cuban Anoles

Species tree phylogenetics of a clade of Cuban Anoles. Seth Rudman. Introduction to Anolis.

390 views • 25 slides

363 views • 21 slides

427 views • 21 slides

287 views • 21 slides

Gain/Duplication/Loss

Supplementary Figure S1. ATGCi. >= 10 species ?. Yes. Species Tree. Matrix COGS/Species. dN,dS. ATGCs. Concatenated alignment. FastTree (GTR). Gain/Duplication/Loss. Root Tree (Least-squared). COUNT. Supplementary Figure S2. a). b). c). d). Supplementary Figure S3. a).

288 views • 16 slides

Practice set 2, question #1

1. 2. 4. 3. Practice set 2, question #1. 1 2 3. 2 4. 1. 3. 2. 2 3 4. 10 11 14 11 4 13. 2. 5.25. 3.25. 6.3. 1.05. UPGMA tree. Gap scored as difference. Favoured maximum parsimony tree:. Question #2.

130 views • 4 slides