Bioinformatics tools for protein analysis

This one-week theoretical and practical course presents the use of bioinformatics tools for retriving, comparing, visualizing and analyzing protein sequences and structures.

 

Topics presented in the course include:

 

  • Sequence search in public databases (BLAST, PSI-BLAST, PHI-BLAST, HMMsearch).
  • Search from fuzzy patterns (Motif).
  • Sequence alignment (Align, Alix, ClustalW/X, 3D-Coffee).
  • Sequence profile and consensus from sequence subsets (Jalview, Logo,HMMer).
  • Logical operation, auto and crosscorrelation on sequence subsets (Evoluswap).
  • Search for signal peptide (SignalP), transmembrane domain (TMHMM), glycosylation sites, acylation sites, phosphorylation sites, functional signature (Prosite).
  • Secondary and tertiary structure prediction (Psi-pred, SCWRL, Swiss-model, Modeller, Robetta).
  • 3D-model validation (Colorado3D).
  • Display residue conservation over structure and analysis of residues programming for fold or function (Colorado3D).
  • Search for ligand binding sites (SUMO).

 

The program of the course organized the previous year can be downloaded to get detailed information on the general content of the course; some topics and practical works may change each year, without altering the general aims and means of the course.

 

Program of the Bioinformtics tools for protein analysis course (PDF - 400 KB)

 

Applicants should have a good internet browsing skills and a Bachelors degree (Master 1) or training in molecular biology and protein biochemistry. No skills in computer programming are required.

The course committee will evaluate applications.

 

Members of the Teaching Committee:

 

C. Parsot (Institut Pasteur),

Thierry Rose (Institut Pasteur).

 

Practical information

 

Title of the course Bioinformatics tools for protein analysis
Directors

Thierry Rose

Cellular immunogenetics unit

Institut Pasteur

Language English
Participants 16
Duration 1 week
Dates

June 2nd to 7th, 2014

Closing date for application April 23, 2014
Diplomas

Institut Pasteur Diploma

 

Attending the course can be validated as a "module d'école doctorale (doctoral school module)" for students registered at partner universities.

Contact

enseignement@pasteur.fr

Application

On line registration

Registration fees

 

Updated on 10/06/2014

Key numbers

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