PPT-V8 – Functional annotation

Program for today Functional annotation of genes gene products Gene Ontology GO significance of annotations hypergeometric test mathematical. Denovo genome Denovo genome outline outline novogenome from contigs from assembled contigs annotation Denovo genome Denovo genome Reads contig Gene Gene Annotation Gene Annotation Forgene Thesis Proposal. Tao Huang. taohuang@cs.indiana.edu. Outline. Introduction. Motivation. Related System Survey. Research Issues. Milestones. Contributions. Introduction. Annotation Definitions. A commentary on an object that: (Cousins et al. 2000). Tao Huang, . Shrideep. . Pallickara. , Geoffrey Fox. Community Grids Lab. Indiana University, Bloomington. . {. taohuang. , . spallick. , . gcf}@indiana.edu. Outline. Analysis of existing Collaboration and Annotation Systems. Archaea. Matthew Blow. mjblow@lbl.gov. Adam . Deutschbauer. Morgan Price. Kelly Wetmore. Adam . Arkin. Cindi. Hoover. Feng. Chen. Jim Bristow. Deutschbauer. lab, LBNL. JGI. G. ene function annotation . BCB 660. October 20, 2011. From Carson Holt. Annotations. Automated. Ab. initio. (based on genomic sequence alone). Involves comparisons to known proteins (BLAST similarity). Sequence motifs such as start/stop . Massimo Poesio. University of . Essex. Part 1: Intro, . Microtask. . crowdsourcing. ANNOTATED CORPORA: . AN ERA OF PLENTY?. With the release of the . OntoNotes. and ANC corpora for English and a number of corpora for other languages (Prague Dependency Treebank especially) we may think we won’t need to do any more annotation for a while . A Close Reading Strategy for Better Comprehension. Text Annotation by Teachers. What is Text Annotation?. While reading, students mark the pages for . Important information. Text meaning or key details. Philip . McParlane. , Yashar Moshfeghi and Joemon M. Jose. University of Glasgow, UK. http://www.dcs.gla.ac.uk/~philip/. p.mcparlane.1@research.gla.ac.uk. Motivation for annotating images. Problems with existing automatic image annotation collections. 2. n-gram language model. 3. classifier. Studying Humour Features - Bolla, Whelan. Guidelines. define tags and describe how they should be applied. Data. 500 reviews of varying length (>7300 sentences). Thesis Proposal. Tao Huang. taohuang@cs.indiana.edu. Outline. Introduction. Motivation. Related System Survey. Research Issues. Milestones. Contributions. Introduction. Annotation Definitions. A commentary on an object that: (Cousins et al. 2000). Authors: Joe Futrelle, Amber York. . @ Woods Hole Oceanographic Institution. Imaging FlowCytobot. (Heidi Sosik et al). HabCam. (Scott . Gallager. et al). SeaBED. (. Hanumat. Singh et al). Phytoplankton . ConceptRank. Petra Budíková, Michal Batko, Pavel Zezula. Outline. Search-based annotation. Motivation. Problem formalization. Challenges. ConceptRank. Idea. Semantic network construction. PageRank and ConceptRank. Loralee Chevone-Garrett and Beth Dibble. ANNOTATION IS NOT. A coloring assignment. A detailed analysis. Exact or correct. Busy work. Teacher-centered. WHAT IS ANNOTATION?. RESEARCH SAYS.... A writing-to-learn strategy for use while reading and rereading.. Daniel Standage. Biology Department. Indiana University. An-no-ta-. tion. . \ˌa. -. nə. -ˈ. tā-. shən. \. A critical or explanatory note or body of notes added to a text. The act of annotating.