[BBC] [Gtpb] CPANG18 - Computational PANgenomics - Course Announcement

[GTPB Administration]

                         ANNOUNCEMENT

CPANG18
Computational PANgenomics

with Tobias Marschall and Erik Garrison


The GTPB is proud to announce that the above referenced hands-on  
training course is open for applications

    IMPORTANT DATES for this Course
    Deadline for applications: February 23rd 2018
    Course date: March 6th - March 9th 2018


Candidates with adequate profile will be accepted in the next 72 hours  
after the application until we reach 20 participants.

Course Description

Reference genomes have become central to bioinformatics approaches,  
and form the core of standard analyses using contemporary sequencing  
data. However, the use of linear reference genomes, which provide the  
sequence of one representative genome for a species, is increasingly  
becoming a limitation as the number of sequenced genomes grows. In  
particular, they tend to bias us away from the observation of  
variation in the genomes we study.

A general solution to this problem is to use a pangenome that  
incorporates both sequence and variation from many individuals as our  
reference system. This pangenome is naturally modeled as a graph with  
annotations, and can provide all the functionality traditionally  
provided by linear reference genomes. Unlike linear reference genomes,  
a pangenome readily incorporates both small and large variation,  
allowing bias-free genotyping at known alleles.

In this course we will explore the use of modern bioinformatic tools  
that allow researchers to use pangenomes as their reference system  
when engaging in studies of organisms of all types. Such techniques  
will aid any researcher working on organisms of high genetic diversity  
or on organisms lacking a high-quality reference genome. This course  
targets all researchers interested in learning about an exciting  
paradigm shift in computational genomics.
Objectives

Participants first will learn about limitations of linear  
reference-based methods and work through a brief refresher or  
introduction to standard approaches for processing sequencing data,  
including read alignment and variant calling. Provided these  
motivating examples, we will use data from a variety of relevant  
sources to develop an intuition about pangenomic methods and a  
practical familiarity with applicable tools.

More information, and access to the application process here:
http://gtpb.igc.gulbenkian.pt/bicourses/2018/PANG18

Ref:
Computational pan-genomics: status, promises and challenges
The Computational Pan-Genomics Consortium Author Notes
Briefings in Bioinformatics, Volume 19, Issue 1, 1 January 2018, Pages  
118–135, https://doi.org/10.1093/bib/bbw089  (OPEN ACCESS)


Hoping that this course meets your interests,

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

-- 
The Gulbenkian Training Programme in Bioinformatics
General Office
Rua da Quinta Grande, 6
2780-156 OEIRAS
Portugal

_______________________________________________
GTPB mailing list
GTPB at igc.gulbenkian.pt
https://lists.igc.gulbenkian.pt/mailman/listinfo/gtpb