SBTM12

Sequence-Based Typing Methods for Microorganisms

Course Timetable (provisional)

SBTM12	Sequence-Based Typing Methods for Microorganisms
Tue, Sep 25th	Day #1
09:30 - 10:30	Course methodology. Self-introductions. Sequence Based Typing Methods: Course Overview Multilocus Sequence Typing
10:30 - 11:00	Coffee Break
11:00 - 12:30	MLST: From Trace Files to Alleles. Using MLST Online databases
12:30 - 14:00	Lunch Break
14:00 - 16:00	Analysis of MLST datasets
16:00 - 16:30	Tea Break
16:30 - 18:00	Analysis of MLST datasets(contd.)
Wed, Sep 26th	Day #2
09:30 - 10:30	Wrap-up session about Day 1 Single Locus Sequence Typing: spa typing / emm typing / ccrB typing
10:30 - 11:00	Coffee Break
11:00 - 12:30	Analysis using SLST methods
12:30 - 14:00	Lunch Break
14:00 - 16:00	Multilocus Varianble Number of Tandem Repeats Analysis (MLVA)
16:00 - 16:30	Tea Break
16:30 - 18:00	Analysis of MLVA data
Thu, Sep 27th	Day #3
09:30 - 10:30	Wrap-up session about Day 2 Beyond MLST: Whole Genome Approaches
10:30 - 11:00	Coffee Break
11:00 - 12:30	Using BIGSdb with Next Generation Sequencing Data. Data analysis of "expanded" MLST datasets
12:30 - 14:00	Lunch Break
14:00 - 16:00	rMLST: ribosomal MLST an unifying typing methodology for bacterial species
16:00 - 16:30	Tea Break
16:30 - 18:00	rMLST data analysis
Fri, Sep 28th	Day #4
09:30 - 10:30	Wrap-up session about Day 3 NGS for Molecular Epidemiology: Comparison of Platforms. Experiment design
10:30 - 11:00	Coffee Break
11:00 - 12:30	NGS data manipulation and assembly: de novo assembly and mapping
12:30 - 14:00	Lunch Break
14:00 - 16:00	NGS data analysis: Drawing NGS Whole Genome SNP Trees. Recombination detection
16:00 - 16:30	Tea Break
16:30 - 18:00	Final wrap-up session Questions / Discussion. Conclusions

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Instituto Gulbenkian de Ciência,

Apartado 14, 2781-901 Oeiras, Portugal

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Last updated: July 8th 2012