introduction to bioinformatics tuesday, 12 march
DESCRIPTION
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. - PowerPoint PPT PresentationTRANSCRIPT
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Introduction to BioinformaticsTuesday, 12 March
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Introduction to BioinformaticsThursday, 28 February
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How to choose your research group
Mueser TC et al (2010) Virol J 7:359
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Origin of DNA replicationCircular, dsDNA
genome
Origin
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Origin of DNA replicationCircular, dsDNA
genome
Origin
Bidirectionalinitiation
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Origin of DNA replicationCircular, dsDNA
genome
Bidirectionalinitiation
Origin
Elongation
Separation
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Origin of DNA replicationOrigin
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Origin of DNA replicationOrigin
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Origin of DNA replicationOrigin
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FISFactor for Inversion
Stimulation in Phage Mu
IHFIntegration Host
Factor for lysogeny of Phage Lambda
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Origin of DNA replicationOrigin
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How to recognize origin of replication?
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Origin of DNA replication
Kaguni (2006) Annu Rev Microbiol 60:351-371.
Fuller et al (1984) Cell 38:889-900.
DnaA binding site
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Origin of DNA replication
Kaguni (2006) Annu Rev Microbiol 60:351-371.
Fuller et al (1984) Cell 38:889-900.
DnaA binding site
R1 TTATCCACAR2 TTATACACAR3 TTATCCAAAR4 TTATCCACA
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Origin of DNA replication
Fuller et al (1984) Cell 38:889-900.
Find it myself
R1 TTATCCACAR2 TTATACACAR3 TTATCCAAAR4 TTATCCACA
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Origin of DNA replicationAlgorithm
* 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
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* Make problem tangible
Morals of the Story
* Experiment
* Package procedure
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Annotation of genes
T4p051
T4p104
T4p120
T4p044
T4p113