[BBC] [Gtpb] SBTM12 - Bioinformatics Training Course anouncement

[Pedro Fernandes]

                           ANNOUNCEMENT

SBTM12 -  SEQUENCE-BASED TYPING METHODS for MICROORGANISMS

with Keith Jolley, Nick Loman, João Carriço,
Mario Ramirez, Nuno Faria and Teresa Conceição

    IMPORTANT DATES for SBTM12
    Deadline for applications: September 10th 2012
    Notification of acceptance dates:
         EARLY: September 3rd 2012
    (on special request, see Application)
         NORMAL: September 12th 2012
    Course date: September 25th - September 28th 2012

Course Description
Overview
Technological advances in DNA sequencing have led to the adoption of  
sequence-based typing methods as the standard techniques for bacterial  
identification at strain level, specially due to their portability and  
reproducibility. The widespread use of remotely accessible databases  
offering different typing data and the development of diverse data  
analysis techniques show the impact of Bioinformatics in this field,  
and the need for understanding how to operate with the databases and  
algorithms. Recently, the capability of sequencing whole bacterial  
genomes in a few days using Next Generation Sequencing (NGS)  
methodologies, opened a new door for the development of more  
sophisticated strain identification tools.

Objectives
This training course is directed for the data analysis of sequence  
based typing methods, from the raw-data to the identification of a  
strain type by several typing methodologies, and the use of analysis  
algorithms to create groups of related strains. It will span from  
Single Locus Sequence Typing methods, such as spa typing or emm  
typing, to the now established MultiLocus Sequence Typing (MLST) and  
Multilocus Variable Number of Tandem Repeats Analysis (MLVA)  
methodologies. The course will also cover methods that apply to whole  
genome sequence data, and show how NGS data can be analyzed and made  
sense of, in this context.
The course will be essentially hands-on. Short presentations will be  
interweaved by tutored assited exercises.
The participants are expected to gradually gain user independence by  
acquiring new analytical skils in using software and online databases  
for specific typing methods. Special attention will be given to  
methods that can use NGS datasets.

Target Audience
This course is aimed to anyone working in molecular epidemiology, that  
wants to develop or consolidate skills in the use and analysis of  
sequence-based typing methods. The course will be illustrated with  
examples from different bacterial species, but the concepts are  
applicable to any species and to other sequence-based typing methods,  
not explicitly referred to in the course.

Course Pre-requisites
Basic understanding of molecular biology, namely in microbial typing  
methodologies and elementary computer interaction skills are expected.


Futher details, including application instructions available at
http://gtpb.igc.gulbenkian.pt/bicourses/SBTM12

thank you for your interest

Pedro Fernandes


-- 

Pedro Fernandes
GTPB Coordinator
Instituto Gulbenkian de Ciência
Apartado 14
2781-901 OEIRAS
Tel +351 21 4407912
http://gtpb.igc.gulbenkian.pt




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