PPT-Gene Finding and Sequence Annotation

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. 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 A webinar for the i5K Pilot Species Projects . Monica Munoz-Torres, PhD. Biocurator & Bioinformatics Analyst | @monimunozto. Genomics Division, Lawrence Berkeley National Laboratory. 04 February, 2014. Marcus Chibucos, Ph.D.. University of Maryland School of Medicine. June 2014. Overview & goals. Understand. 1. How we predict . presence & structure . of coding & non-coding genes in the genome. Expanding Exposure, Career Exploration and Interactive Projects in Basic Genome Analysis and . Bioinformatics. Program Overview – National Science Foundation ITEST Strategies Project. Recruitment of 30 high school science teachers and 150 students per year to be involved in the annotation process (3 years total funding).. :DAVID. D. atabase for . A. nnotation, . V. isualization and . I. ntegrated . D. iscovery . (. DAVID ). Functional Annotation Tool. . Gene Ontology. Protein interaction . Protein domain. Pathway. . AGeS: A Software System for Annotation and Analysis of Genome Sequences . *jaques.reifman@us.army.mil (301) 619-7915 . Kamal Kumar, Valmik Desai, Li Cheng, Maxim Khitrov, Deepak Grover, Ravi Vijaya Satya, Chenggang Yu, Nela Zavaljevski, and . &. 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. . 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. Gene Function and Gene Ontology. Fall 2011. http://gowiki.tamu.edu/wiki/index.php/Category:CACAO. “. Scientists find gene that .... ”. An avalanche of genes. High throughput sequencing is finding genes faster than we can understand them. 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. BMI/CS 776 . www.biostat.wisc.edu/bmi776/. Spring 2020. Daifeng. Wang. daifeng.wang@wisc.edu. These slides, excluding third-party material, are licensed . under . CC BY-NC 4.0. by Mark . Craven, Colin Dewey, Anthony . Yanbin Yin. Fall 2014. 1. Outline. Intro to EBI. Databases and web tools. UniProt. Gene Ontology. Hands on Practice. MOST MATERIALS ARE FROM: http. ://www.ebi.ac.uk/training/online/course-. list. 2. Three international nucleotide sequence databases. Jeremy Buhler. Adapted by Wilson Leung. Last Update: 08/23/2022. Overview. What is comparative annotation?. How to measure similarity between biosequences. How to decide whether two sequences are “similar enough”. 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 .