Presentation is loading. Please wait.

Presentation is loading. Please wait.

Introduction to Bioinformatics Tuesday, 12 March.

Similar presentations


Presentation on theme: "Introduction to Bioinformatics Tuesday, 12 March."— Presentation transcript:

1 Introduction to Bioinformatics Tuesday, 12 March

2 Introduction to Bioinformatics Thursday, 28 February

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

4 Origin of DNA replication Circular, dsDNA genome Origin

5 Origin of DNA replication Circular, dsDNA genome Origin Bidirectional initiation

6 Origin of DNA replication Circular, dsDNA genome Bidirectional initiation Origin Elongation Separation

7 Origin of DNA replication Origin

8 Origin of DNA replication Origin +

9 Origin of DNA replication Origin + + FIS Factor for Inversion Stimulation in Phage Mu IHF Integration Host Factor for lysogeny of Phage Lambda

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

11 Origin of DNA replication Kaguni (2006) Annu Rev Microbiol 60: Fuller et al (1984) Cell 38: DnaA binding site

12 Origin of DNA replication Kaguni (2006) Annu Rev Microbiol 60: Fuller et al (1984) Cell 38: DnaA binding site R1 TTATCCACA R2 TTATACACA R3 TTATCCAAA R4 TTATCCACA

13 Origin of DNA replication Fuller et al (1984) Cell 38: Find it myself R1 TTATCCACA R2 TTATACACA R3 TTATCCAAA R4 TTATCCACA

14

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

16 * Make problem tangible Morals of the Story * Experiment * Package procedure

17

18

19

20

21

22 Annotation of genes T4p051 T4p104 T4p120 T4p044 T4p113


Download ppt "Introduction to Bioinformatics Tuesday, 12 March."

Similar presentations


Ads by Google