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| Workshop Objectives |
This course is intended for both experimental biologists and computational scientists.
Participants are expected to have a basic understanding of biology but do not have to be computer scientists.
The prime objective of the course is to convey an appreciation of the range and capabilities of services made available at the EBI.
The course will introduce some of the different protein resources available.
You will learn to search for the protein sequence, identify it and do some functional analysis.
The following resources will be covered: UniProt protein sequence database, InterPro protein signature database, IntAct protein-protein interaction database, and Reactome pathway database.
You will gain hands-on experience with each of these resources:
- Overview of the UniProt protein sequence database, including sequence searching methods and alignments.
- Comparative proteomics: how information on protein families and domains in InterPro can be used to classify and annotate proteins.
- Exploring protein-protein interaction networks using the IntAct database.
- Browsing protein pathways in Reactome.
Furthermore, Ensembl, an infrastructure for genomic information, from its storage through to analysis and visualization will also be covered in this workshop.
Participants will be given the possibility to gain hands-on experience in the use of the Ensembl genome browser providing the necessary background information.
The Ensembl project focuses mainly on vertebrate genomes:
- Introduction to Ensembl: Origin, goals and organization of the Ensembl project
- Worked example: Guided tour of the most important pages of the Ensembl website
- Data mining with BioMart: Retrieving datasets using the data mining tool BioMart
- Evaluating genes and transcripts: How are Ensembl gene and transcripts predictions made
- Comparative genomics and proteomics: Orthologues, protein families, whole genome alignments and syntenic regions
- Variations: SNPs, haplotypes, linkage disequilibrium
This workshop is designed for researchers who want to increase their knowledge on EBI resources. The event is a good example of the transfer of technology in the field of genomics and bioinformatics and the training of students and scientists involved in Bioinformatics research and teaching in Morocco in particular and Africa in general.| Program |
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Daily Schedule
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| Language |
Lectures and hands-on sessions will be given in English.
| Admission |
Admitted are researchers, MA and PhD students in biology,
bioinformatics in their broader range of disciplines: computer science, biology, medicine, pharmacy.
Selection of the candidates will be based on curriculum vitae.
Candidates will be asked to provide information on their personal tasks and field of research. Good knowledge of the English language is a prerequisite.
The target audience will be scientists of different fields including Biologists,
Geneticists, Physicists, Mathematicians, Statisticians, and Software Developers,
from various levels including professors, researchers, educators, graduate students,
and other scientific staff who either work with biomedical and biological global data or are interested in understanding how to incorporate such data into their specific research.
No prior experience in bioinformatics is required.
However, candidates are expected to have basic knowledge in basic computer operations and common Web browsers.
Knowledge of molecular biology and basic experience with EBI resources is a plus.
Both experienced and no experienced of the EBI tools and resources will benefit, as the latest tools and methods.
The sessions include a combination of lectures, and hands-on experience, eventually with actual user questions.
The course consists of a 3-hour morning lecture and demonstrations from 9:00-12:30pm,
followed by a 3-hour 14 - 17pm training sessions.
This three-day course is designed particularly for those based in biomedical and biological institutions,
and who want to improve or update their knowledge and skills about EBI tools and resources or provide bioinformatics support to their colleagues.
The course will provide an overview of a wide range of molecular biology resources that research communities need and use.
| Participation |
The number of candidates for both the theoretical and practical course is limited to 60 persons.
Priority will be given to those who are involved in bioinformatics research or studies.
Others will be welcome as space allows. Evidence of involvement in research in Computational Biology or related fields must be provided
For each participant Labtop and internet connexion (3G modem) are necessary
Registration deadline: December, 30th, 2009.
Those accepted will be informed by January 5th, 2010.
Those accepted will be informed by January 5th, 2010.
Registration Fees:
Theoretical and practical course: 550 Dhs – Students: 350 Dhs.
Theoretical and practical course: 550 Dhs – Students: 350 Dhs.
| Course materials |
Lecture notes - Equipment: Computers - Certificates
| Instructors |
Xosé M. Fernández and Jennifer McDowall from the Protein and Nucleotide Database Group at EMBL-EBI (The European Bioinformatics Institute) will be in charge of the workshop.
| Partners |
Moroccan Society of Bioinformatics (SMBI)
EMBL-European Bioinformatics Institute (EBI)
Ecole Nationale des Sciences Appliqués de Tanger (ENSAT)
Faculté des Sciences et Téchnique de Tanger FSTT)
Université Abdelmalek Essaadi (UAE)
EMBL-European Bioinformatics Institute (EBI)
Ecole Nationale des Sciences Appliqués de Tanger (ENSAT)
Faculté des Sciences et Téchnique de Tanger FSTT)
Université Abdelmalek Essaadi (UAE)
| Workshop Coordinator |