Contact

 

 

Summer School Director: 
M. Pilar Francino
 
Summer School Administrator:
Kevin Cifuentes
Telf.: 961 925 911

 

 
 
 
 
 

SUMMER SCHOOL - Module 2

 

 



Module 2/ Basic Computational Skills for Genomic Analysis

Coordinator: Giuseppe D'Auria (dauria_giu@gva.es)

NEW EDITION IN OCTOBER!

Dates: October 2nd- October  6th 2017

Pre-registration

Genomics and Health Area of Fundación para el Fomento de la Investigación Sanitaria y Biomédica de la Generalitat Valenciana (FISABIO – Salud Pública) propose a basic course in bioinformatics for genomes analysis.

The course is addressed to students and professionals of biology, biomedical research, the health sciences and related fields who are interested in learning the basic computational skills required to pursue their own genomic analyses.

The module will be eminently practical and hands-on, and will teach participants skills ranging from the installation and basic use of Linux systems to the building of analysis pipelines and the utilization of the main functions available in the "R" platform for statistical analysis of genomes and metagenomes. Theoretical lectures and practical hands-on sessions will be taught by FISABIO researchers and informaticians.

Official language: English.

Module costs: 350 euros

 

Instructors:

Alejandro Artacho. MS in Bioinformatics, FISABIO-SP, Bioinformatician at Genomics and Health Area.
Pascual Asensi. Systems Administrator, University of Valencia, Genomics and Health Area.
Giuseppe D'Auria. PhD., FISABIO-SP, Coordinator of Sequencing and Bioinformatics Service.
Rosario Gil. Associate professor, University of Valencia.
David Perez-Villarroya. MS. in Bioinformatics, FISABIO-SP, Bioinformatics technician at  Sequencing and Bioinformatics Service.

 

Alejandro Artacho

MS in Bioinformatics, FISABIO-SP, Bioinformatician at Genomics and Health Area.

artacho_ale@gva.es

 

 

David Perez-Villarroya

MS. in Bioinformatics,FISABIO-SP, Bioinformatics technician at  Sequencing and Bioinformatics Service.

perez_davvil@gva.es

 

Giuseppe D'Auria

PhD., FISABIO-SP, Coordinator of Sequencing and Bioinformatics Service.

dauria_giu@gva.es

 

 

Rosario Gil

Associate professor, University of Valencia.

rosario.gil@uv.es

 

Pascual Asensi

Systems Administrator, University of Valencia, Genomics and Health Area.

Pascual.Asensi@uv.es

 

 

 

 

 

 

 

Course program:

Monday October 2nd:


09:15 – 10:00 Next generation sequencing technologies: the birth of the Genomics Era
        Rosario Gil

10:00 – 10:45 Comparative genomics for genome annotation and functional analysis.
        Rosario Gil

Break

11:00 – 11:45 NGS in microbial ecology (Taxonomy and metagenomics).
        Rosario Gil

11:45 – 13:00 Linux system, installing a new distro I.
        Pascual Asensi

Lunch

14:30 – 16:00 Linux system, installing a new distro II.
        Pascual Asensi

16:00 – 16:30 From office automation to computation for NGS.
        Giuseppe D'Auria

16:30 – 17:30 Unix commands, moving around the system, practice I.
        David Perez-Villarroya


Tuesday October 3rd:

09:00 – 10:45 Unix commands, moving around the system, practice II.
        David Perez-Villarroya

Break

11:00 – 12:00  One command line pipelines, practice.
        Giuseppe D'Auria

12.00 – 13.00 NGS Bioinformatics formats, managing data.
        Giuseppe D'Auria

Lunch

14.30 – 15.30 NGS Bioinformatics formats, managing data, practice.
        Giuseppe D'Auria

15:30 – 16:30 Genome Assembly and mapping.
        Giuseppe D'Auria

16:30 – 17:30  Genome assembly, practice.
        Giuseppe D'Auria

Wednesday October 4th:

09:00 – 10:45 Genome mapping, practice.
        Giuseppe D'Auria

Break

11:00 – 12:00 Introduction to "R". How to install the environment, applications.
        Alejandro Artacho

12:00 – 13:00 R data formats and operations, practice I.
        Alejandro Artacho

Lunch

14:30 – 16:30 R data formats and operations, practice II.
        Alejandro Artacho

14:30 – 17:30 R programming for bioinformatics.
        Alejandro Artacho

Thursday October 5th:

09:00 – 10:45 R programming for bioinformatics, practice I.
        Alejandro Artacho

Break

11:00 – 13:00 R programming for bioinformatics, practice II.
        Alejandro Artacho

Lunch

14:30 – 16:00 R practice and tutouring.
        Alejandro Artacho

16:00 – 17:30 R practice and tutouring.
        David Perez-Villarroya

Friday October 6th:

09:00 – 10:45 Students Projects.
        Giuseppe D'Auria

Break

11:00 – 12:00 Tests and questionnaires.
        Giuseppe D'Auria

12:00 – 13:00 NGS sequencing and beyond
        Rosario Gil