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Introduction to Bioinformatics Tuesday, 12 March

Introduction to Bioinformatics Tuesday, 12 March. Introduction to Bioinformatics Thursday , 28 February. How to choose your research group. Mueser TC et al (2010) Virol J 7:359. Origin of DNA replication. Origin. Circular, dsDNA genome. Origin of DNA replication. Origin.

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Introduction to Bioinformatics Tuesday, 12 March

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  1. Introduction to BioinformaticsTuesday, 12 March

  2. Introduction to BioinformaticsThursday, 28 February

  3. How to choose your research group Mueser TC et al (2010) Virol J 7:359

  4. Origin of DNA replication Origin Circular, dsDNAgenome

  5. Origin of DNA replication Origin Circular, dsDNAgenome Bidirectionalinitiation

  6. Origin of DNA replication Origin Circular, dsDNAgenome Bidirectionalinitiation Elongation Separation

  7. Origin of DNA replication Origin

  8. Origin of DNA replication Origin +

  9. Origin of DNA replication Origin + FISFactor for Inversion Stimulation in Phage Mu IHFIntegration Host Factor for lysogeny of Phage Lambda +

  10. Origin of DNA replication Origin + How to recognize origin of replication? +

  11. Origin of DNA replication DnaA binding site Kaguni (2006) Annu Rev Microbiol 60:351-371. Fuller et al (1984) Cell 38:889-900.

  12. Origin of DNA replication DnaA binding site Kaguni (2006) Annu Rev Microbiol 60:351-371. R1 TTATCCACAR2 TTATACACAR3 TTATCCAAAR4 TTATCCACA Fuller et al (1984) Cell 38:889-900.

  13. Origin of DNA replication Find it myself R1 TTATCCACAR2 TTATACACAR3 TTATCCAAAR4 TTATCCACA Fuller et al (1984) Cell 38:889-900.

  14. Origin of DNA replicationAlgorithm * Search genome sequence for DnaA-binding sites - TTAT[CA]CACA - One mismatch? - Use MATCHES-OF-PATTERN * Add context - Loop through sites - JOIN site information with CONTEXT-OF * Sort sites by coordinate - Use SORT * Look for clusters - ??? Apply to all phage genomes

  15. Morals of the Story * Make problem tangible * Experiment * Package procedure

  16. Annotation of genes T4p051 T4p104 T4p120 T4p044 T4p113

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