1. November 2007BRC5 Bethesda Variation data in VectorBase Dan Lawson, VectorBase EMBL-EBI

2. November 2007BRC5 Bethesda Variation database » Use Ensembl Variation database schema » Ancilliary database to ‘core’ » Perl API for programmatic access » Biomart implementation for data mining » Align reads to reference genome and call SNPs

3. November 2007BRC5 Bethesda Showing SNPs in ContigView

4. November 2007BRC5 Bethesda Showing SNPs in ContigView

5. November 2007BRC5 Bethesda SNP Report

6. November 2007BRC5 Bethesda SNP Report - SNP context

7. November 2007BRC5 Bethesda TranscriptSNPview

8. November 2007BRC5 Bethesda

9. November 2007BRC5 Bethesda GeneSNPview

10. November 2007BRC5 Bethesda Navigation through SNP pages

11. November 2007BRC5 Bethesda

12. November 2007BRC5 Bethesda

13. November 2007BRC5 Bethesda Alignment of strain sequences

14. November 2007BRC5 Bethesda Tabulated SNP details

15. November 2007BRC5 Bethesda More Anopheles gambiae genomes » Sequencing of A. gambiae M & S forms complete » M form (WashU GSC) 2,754,999 reads » S form (JCVI) 2,714,217 reads » Planned sequencing for 12 genome Anopheles cluster

16. November 2007BRC5 Bethesda SNP calling in A. gambiae S form » Data from Ewen Kirkness (JCVI) » 2.1 million potential SNPs

17. November 2007BRC5 Bethesda Summary » (Re)-use of well established data structure » Extensive set of visualization tools » Data mining via BioMart tool » Programmatic access through Ensembl » Ability to handle re-sequencing data (including new technologies)