PPT-Assembly and Annotation of a 22Gb

C onifer G enome Loblolly Pine Jill Wegrzyn Pieter de Jong Chuck Langley Dorrie Main Keithanne Mockaitis Steven Salzberg Kristian Stevens Nick Wheeler Jim Yorke Aleksey . 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. 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 . &. Text Coding. Learning Target. I can determine a central idea of a text and how it is conveyed through particular details; provide a summary of the text distinct from personal opinions or judgments. . Triplets to Sentence Fingerprints. Motivation. . Scientific concepts are annotated with controlled vocabulary (CV) terms from ontologies such as Gene Ontology (GO) and Plant Ontology (PO). . Our Arabidopsis specific tool - . 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). GO editors agreed on C16 relations . QuickGO graph of relations much less flat. 32. 51. Progress on Annotation extension relations. David OS transferred all . C16 relations . Wiki pages to . GitHub. and created new pages. 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 . The Next Generation. Rashmi. Prasad, Bonnie . W. ebber, . A. lan Lee. *. Aravind. Joshi. Outline. Introduction. Discourse Coherence and its annotation. PDTB Basics. PDTB enrichment. Motivation. New relations. 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. Lecture 3. Gene Finding and Sequence Annotation. Objectives of this lecture. Introduce you to basic concepts and approaches of gene finding. Show you differences between gene prediction for prokaryotic and eukaryotic genomes. Benefit #1 of annotation: . helps you to stay . awake. We all know that sometimes the reading selections can be a tad bit boring right…….. Annotating the text keeps your . brain. . working. . and it keeps you . Tool. (. TART). Outline. Pragmatics & Corpora. Speech/Dialogue-Act Annotation. The DART Approach. From DART to . TART. Observations & Issues. Intended Features. Potential Applications. Pragmatics & Corpora. a . Tool for Online Annotation and . Curation. Dorrie Main, Taein Lee, Ping . Zheng. , Sook Jung, Stephen P. Ficklin, Jodi Humann, . Jill . Wegrzyn.  and David Neale. What is . GenSAS. ?. It is a web-based .