PDF-VEME 2013 - Phylogeny Inference Module

0830 900 Welcome and practical instructions 900 1030 Fundamentals of molecular evolution theory AnneMieke Vandamme Catholic University of Leuven Belgium 1030 1100 Coffee break and Pos. Daniel R. Schlegel. Department of Computer Science and Engineering. Problem Summary. Inference graphs. 2. in their current form only support propositional logic. We expand it to support . L. A. – A Logic of Arbitrary and Indefinite Objects.. - based on whole genome data. Johanne Ahrenfeldt . Research Assistant. Overview. What is Phylogeny and what can it be used for. S. ingle . N. ucleotide . P. olymorphism (SNP) methods. - . snpTree. . Systematics. Phylogeny. Phylon. = tribe, . geny. . = genesis or origin. The evolutionary history of a species or a group of related species.. Investigating the Tree of Life. Phylogeny: the evolutionary history of a species or group of species. Investigating the Tree of Life. Legless lizards have evolved independently in several different groups. Figure 26.1. Phylogeny. is the evolutionary history of a species or group of related species. For example, a phylogeny shows that legless lizards and snakes evolved from different lineages of legged lizards. Susan Athey, Stanford GSB. Based on joint work with Guido Imbens, Stefan Wager. References outside CS literature. Imbens and Rubin Causal Inference book (2015): synthesis of literature prior to big data/ML. Warm up. Share your picture with the people at your table group.. Make sure you have your Science notebook, agenda and a sharpened pencil. use tape to put it in front of your table of contents. Describe the difference between observations and inferences. Section 1.3. Learning Goals. We are exploring modern classification of species using phylogeny.. We are learning to use phylogenetic trees to identify common ancestors.. Modern Taxonomy. traditional classification grouped species according to morphology (body, shape, size and other structural features) . Objective. SWBAT explain and demonstrate that organisms share many conserved core processes and features that evolved and are widely distributed among organisms today.. Agenda. Chapter 25 Quiz. Chapter 26 notes: sections 26.1, 26.2, and 26.3. Monday 26 8:30 - 9:00 Welcome and practical instructions 09:00 - 10:30 Introduction to next generation sequencing (NGS): technologies and challenges Li Yin (University of Florida Gainesville, FL, USA) Monday 26 08:30 - 9:00 Welcome and practical instructions 9:00 - 10:30 Experimental design and Phylodynamic inference Melissa Norstrom (Karolinska Institute, Stockholm, Sweden) 10:30 - 11:00 Coffee br Johanne Ahrenfeldt . PhD Student. Overview. What is Phylogeny? . How has it been used in the past?. Advantages of WGS based phylogeny. - Vibrio . cholerae. . case. BREAK. How are we using it?. CSI phylogeny & . . Streptomycetaceae. Alan Ward. Motivation. Streptomyces . taxonomy. 16S. Whole genome sequencing. A bigger 16S phylogeny. Where is the diversity. The type strains. Nasser Ben Qasem . 503-Biology . WIU . Turtles.  are . reptiles . of the . order . Testudines.  characterized by a special . bony . or. . cartilaginous shell. . The order Testudines includes both extant (living) and . Jasmin . sutkovic. What are those?. Phylogenetic trees . represent . the evolutionary relationships among a set of organisms or groups of . organisms. These organisms are c. alled. . taxa (singular: taxon) that are believed to have a common ancestor.