Structural Bioinformatics and Molecular Simulation

Monday, November 28th, 2005

09h00-10h00 Protein Structures. Margarida Archer. ITQB-UNL

10h15-11h15 Carbohydrate Structures. Phil A Jackson. ITQB-UNL

11h30-12h30 Lipids and Membrane Structures. Manuel Prieto. IST-UTL

Lunch

14h30-16h00 Algorithms. Eric Tannier

16h00-18h00 Study and Practice

Tuesday, November 29th, 2005

09h00-10h00 Nucleic Acid Structures. Alvaro Tavares. IGC/IST-UTL

10h00-12h00 Algorithms. Eric Tannier

12h00-13h00 IGC Tuesday Seminar

Lunch

14h30-17h30 Determination of Biomolecular Structures .1. X-Ray Crystallography. Isabel Bento. ITQB-UNL

Wednesday, November 30th, 2005

9h00-12h00 Determination of Biomolecular Structures .2. NMR. Pedro Lamosa. ITQB-UNL

Lunch

14h30-16h00 Algorithms. Eric Tannier

16h00-18h00 Study and Practice

Thursday, December 1st, 2005

11h00-13h00 Algorithms. Eric Tannier

Lunch

14h30-16h00 Algorithms. Eric Tannier

16h00-18h00 Study and Practice

Friday, December 2nd, 2005

9h30-10h00 Overview of Structure Bioinformatics and Biomolecular Simulation. Claudio Soares. ITQB-UNL

10h10-12h00 Visualisation of Structural Information. Antonio M. Baptista, Diana Lousa, Sara Campos. ITQB-UNL

12h00-13h00 IGC Friday Seminar

Lunch

14h30-16h30 The role of statistical mechanics in Biomolecular Modeling. Antonio M. Baptista. ITQB-UNL

16h30-18h00 Study and Practice

Monday, December 5th, 2005

10h00-12h00 Principles of Molecular Mechanics and Dynamics. Claudio Soares. ITQB-UNL

Lunch

14h30-18h00 Study and Practice

Tuesday, December 6th, 2005

9h00-12h00 Study and Practice

12h00-13h00 IGC Tuesday Seminar

Lunch

14h30-18h30 Practical on Molecular Mechanics and Dynamics. Claudio Soares, Nuno Micaelo, A. Sofia F. Oliveira. ITQB-UNL

Wednesday, December 7th, 2005

9h00-13h00 Study and Practice

Lunch

14h30-16h30 Principles of Continuum Electrostatics. Antonio M. Baptista. ITQB-UNL

Thursday, December 8th, 2005

9h00-13h00 Study and Practice

Lunch

14h30-18h00 Study and Practice

Friday, December 9th, 2005

9h00-12h00 Study and Practice

Lunch

12h00-13h00 IGC Friday Seminar

Lunch

14h30-18h30 Practical on Continuum Electrostatics. Antonio M. Baptista, Vitor H. Teixeira, Miguel Machuqueiro. ITQB-UNL

Monday, December 12th, 2005

09h00-09h50 Principles of Molecular Docking. Claudio Soares. ITQB-UNL

10h00-13h00 Principles of Molecular Docking .1. Claudio Soares, Bruno Victor, Carlos A. Cunha. ITQB-UNL

Lunch

14h30-16h00 Principles of Molecular Docking .2. Claudio Soares, Bruno Victor, Carlos A. Cunha. ITQB-UNL

16h00-18h00 Study and Practice

Tuesday, December 13th, 2005

9h00-12h00 Methodologies in Drug Design .1. Roderick E. Hubbard. University of York and Vernalis Ltd, UK

12h00-13h00 IGC Tuesday Seminar

Lunch

14h30-16h30 Methodologies in Drug Design .1. Roderick E. Hubbard. University of York and Vernalis Ltd, UK

16h30-18h00 Study and Practice

Wednesday, December 14th, 2005

10h00-12h00 Methods for Protein Structure Prediction. Claudio Soares. ITQB-UNL

Lunch

14h30-18h00 Study and Practice

Thursday, December 15th, 2005

9h00-13h00 Practical on Protein Structure Prediction. Claudio Soares, Bruno Victor, A. Sofia F. Oliveira. ITQB-UNL

Lunch

14h30-18h00 Study and Practice

Friday, December 16th, 2005

9h30-12h00 Wrapping up structural bioinformatics and molecular simulation. Claudio Soares. ITQB-UNL

12h00-13h00 IGC Friday Seminar

Lunch

14h30-18h00 Study and Practice

MSS2 Review Week

Supervised by Marie-France Sagot

Monday, January 2nd, 2006

09h00-11h00 Assignment 1

11h00-11h30 Break

11h30-13h00 Discussion on assignment 1

Lunch

14h00-16h00 Assignment 2

16h00-16h30 Break

16h30-17h30 Discussion on assignment 2

Tuesday, January 3rd, 2006

09h00-11h00 Assignment 3

11h00-11h15 Break

11h15-12h00 Discussion on assignment 3

12h00-13h00 IGC Tuesday Seminar

Lunch

14h30-16h15 Assignment 4

16h15-16h30 Break

16h30-17h30 Discussion on assignment 4

Wednesday, January 4th, 2006

09h00-11h00 Survey 1 / Assignment 5

11h00-11h30 Break

11h30-13h00 Discussion

Lunch

14h00-16h00 Survey 2 / Assignment 6

16h00-16h30 Break

16h30-17h30 Discussion

Thursday, January 5th, 2006

09h00-11h00 Some open problems 1

11h00-11h30 Break

11h30-13h00 Discussion

Lunch

14h00-16h00 Some open problems 2

16h00-16h30 Break

16h30-17h30 Discussion

Friday, January 6th, 2006

09h00-12h00 Assignment 7 (whose results are to be sent later by email to the supervisor)

12h00-13h00 IGC Friday Seminar

Lunch

14h30-18h00 Assignment 7 (cont)

RNA Structure

Monday, January 9th, 2006

11h00-13h00 Introduction to Bayesian inference and statistics. Antonia Turkman (FCUL) and Carlos Daniel Paulino (IST)

Lunch

14h30-18h00 Study and Practice

Tuesday, January 10th, 2006

9h00-10h50 RNA Structure. Eric Westhof (IBMC/CNRS Strasbourg)

11h00-12h00 Introduction to Bayesian inference and statistics. Antonia Turkman (FCUL) and Carlos Daniel Paulino (IST)

12h00-13h00 IGC Tuesday Seminar

Lunch

14h30-18h00 Study and Practice

Wednesday, January 11th, 2006

9h00-10h50 RNA Structure. Eric Westhof (IBMC/CNRS Strasbourg)

11h00-13h00 Introduction to Bayesian inference and statistics. Antonia Turkman (FCUL) and Carlos Daniel Paulino (IST)

Lunch

14h30-18h00 Study and Practice

Thursday, January 12th, 2006

9h00-10h50 RNA Structure. Eric Westhof(IBMC/CNRS Strasbourg)

11h00-13h00 Introduction to Bayesian inference and statistics. Antonia Turkman (FCUL) and Carlos Daniel Paulino (IST)

Lunch

14h30-18h00 Study and Practice

Friday, January 13th, 2006

11h00-12h00 Introduction to Bayesian inference and statistics. Antonia Turkman (FCUL) and Carlos Daniel Paulino (IST)

12h00-13h00 IGC Friday Seminar

Lunch

14h30-18h00 Study and Practice