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Research Presentation Nordborg Lab University of Southern California

Research Presentation Nordborg Lab University of Southern California. Helly Kwee August 21, 2003 Southern California Bioinformatics Summer Institute. Agenda. Research area overview Projects Bioinformatics Tools Current State of Affairs Conclusion (Impacts). Overview.

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Research Presentation Nordborg Lab University of Southern California

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  1. Research Presentation Nordborg Lab University of Southern California Helly Kwee August 21, 2003 Southern California Bioinformatics Summer Institute

  2. Agenda • Research area overview • Projects • Bioinformatics Tools • Current State of Affairs • Conclusion (Impacts)

  3. Overview • Genetic basis of adaptation • Map loci conferring natural variation in Arabidopsis thaliana • NSF 2010 Project

  4. Projects • Genomic survey of polymorphism in A. thaliana • Sequence ~2000 fragments from 96 accessions • Phenotype various traits • Association analysis • Bioinformatics tools: • Publicly accessible database • Web-based viewers

  5. Bioinformatics Tools • Revised database schema • Populating the database • Revised web-based viewers • Genome • Polymorphism • Alignment

  6. viewer.pm db.pm alignmentviewer.pl genomeviewer.pl alignmentviewer.pl polymorphismviewer.pl genomeviewer.pl polymorphismviewer.pl Code Revision I Modules

  7. Screenshot-- Alignment Viewer

  8. Screenshot-- Genome Viewer Screenshot– Genome Viewer

  9. Screenshot-- Polymorphism Viewer

  10. Impacts • Insights into genetic basis of natural variation • Genes responsible for agriculturally important traits • Tools and methods --> applicable to economically important organisms • Database as training tool

  11. Questions ?

  12. Acknowledgements • Dr. Nordborg and his lab • SoCalBSI faculty • NSF and NIH

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