PPT-Genome Browsers

Genome Browser Combines a genome database with interactive web pages Allows the user to retrieve and manipulate database record through a graphical user interface GUI Different types of information are displayed in an intuitive fashion in userconfigurable tracks. sequencing . for . identification,. detection, . and control of . Bactrocera dorsalis (. Hendel. ). and other Tephritid pests. Thomas Walk, Scott . Geib. USDA-ARS Pacific Basin Agricultural Research Center, Hilo HI. Jeroen. . Raes. , Jan O . Korbel. , Martin J . Lercher. , Christian von . Mering. and Peer Bork. Presented by Daehwan Kim. Outline. Genome size. Genome sizes of Archaea, Bacteria, and Eukaryotes. Factors affecting genome and genome sizes . 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 . (as told by Michael Lynch). Genome size and complexity varies across the tree of life. Lynch 2007. Some Big Questions. What is the relationship between genomic and organismal size/complexity?. Are genome size changes adaptive, or passively acquired?. By Kevin Chen, . Lior. . Pachter. PLoS. Computational Biology, 2005. David Kelley. State of . metagenomics. In July 2005, 9 projects had been completed.. General challenges were becoming apparent. Paper focuses on computational problems. from Biological . Problem to . Combinatorial Algorithms. (and back). Pavel Pevzner. Department of Computer . Science,. . University . of California at San Diego. What is the evolutionary scenario for transforming one genome into the other?. And Mobile Web Browsers. Guiding Questions. What is a mobile Web browser?. Why do Web pages look differently on different Web browsers?. What is Web page rendering. ? . What . is a viewport?. Most popular Web Browsers. Browse genes in their genomic context.. See features in and around specific genes. Investigate genome organization. Search and retrieve information on a gene- and genome-scale. Compare genomes and genome regions. Mayo/UIUC Summer . C. ourse in Computational Biology. Session Outline. Genome sequencing. Schematic overview of genome assembly. (a) DNA is collected from the biological sample and sequenced. (b) The output from the sequencer consists of many billions of short, unordered DNA fragments from random positions in the genome. (c) The short fragments are compared with each other to discover how they overlap. (d) The overlap relationships are captured in a large assembly graph shown as nodes representing . Librarian. Glenside Public Library District. Web Basics. Terminology . &. Descriptions. Web Browsers & URLs. Search Tools . &. Tips. Internet Safety. Agenda. The Internet. : A system . of interconnected global computer networks that allow people to share digital information with one another. . David Fulton,. Director of Product Management, Web Experience Center Of Excellence,. March 2011. Agenda. Presentation (20 minutes):. Why is mobile (and specifically the mobile web) becoming a priority?. REM 456 - . Integrated Rangeland Management. K. Launchbaugh. NPS.gov. K. Launchbaugh. Animal species differ in: . J. Olness. K. Launchbaugh. K. Launchbaugh. J. Peterson. Digestive anatomy. Body size. Hardison. Genomics5_1. 2/17/15. 1. Types of data in genomics. Protein and DNA sequences . Protein structure and function. Comparisons of DNA and protein sequences. Between species. Among individuals within a species. However, genomes are large and complex and visualizing this information is not easy. You need to imagine that the raw annotation information, by itself, can be contained in a text file, which could include positional information (coordinates relative to the reference genome) and different features (e.g. annotation type – gene, mRNA, intron/exon, variant, UTR, etc.).