Jornada BIPEDD2 - Plataforma VSDMIP (29/11/2012)

Material

• Documentacion MM-ISMSA
• Documentacion VSDMIP

Master Biofisica (2012/2013)

Bioinformatica

Small molecule Docking

- Classes

• Slides Class

- Downloads

• VSDMIP-lite: Docking and Virtual Screening Platform
• Manual and Exercises

Introduction to Computer Programming with MATLAB

- Classes

• Day 1 - PPT | PDF
• Day 2 - PPT | PDF
• Day 3 - PPT | PDF
• Day 4 - PPT | PDF
• Day 5 - PPT | PDF

- Exercises

• Day 1 (8/10/2012) - DOC | PDF
• Day 2 (8/10/2012) - DOC | PDF
• Day 3 (15/10/2012) - DOC | PDF
• Day 4 (15/10/2012) - DOC | PDF | Data: Proteins
• Day 5 (15/10/2012) - DOC | PDF | Data: Image
• Full list - PDF

- Final project

• Implementation of Needleman‐Wunsch algorithm with Matlab DOC | PDF
• Implementación del algoritmo Needleman‐Wunsch con Matlab DOC | PDF

Aligment Example:

Seq 1: CTCAGCCCTTCCCAGCACTTCTCCCACTTTGTCCCGAGCCTCCTTCTCCCCCAGCAGG
Seq 2: CTCAGCACTTACCCAGGACTTTTCACCACTTTTCCCAGACTCCTCCCCTAGCAGG

Result:

Seq 1: -TCAGCCCTT-CCCAGCACTTCTC-CCACTTTGTCCCGAGCCTCCTTCTCCCCCAGCAGG
Seq 2: CTCAGCACTTACCCAGGACTTTTCACCACTTT-TCCC-AGACT-C--CTCCCCTAGCAGG

- Additional resources

• Matlab cheat sheet
• Matlab Reference Book
• Matlab documentation

Otros Cursos

• 20/12/2011 - Master Bioinformatica UCM : Materiales
• 03/11/2011 - Curso Leon : Materiales
• 20/06/2011 - Taller de docking y cribado virtual: uso de herramientas computacionales en el diseño de fármacos : Materiales
• 27/05/2011 - Intoducción a la cristalografía de proteinas : Materiales
• 20/05/2011 - Curso CEU : Materiales

MM-ISMSA Sesion Practica

Course guide-line and documentation: Download

Datos Proteina-Ligando

• Global energy results raw complexes Download
• Global energy results minimized complexes - Download
• Protein-Ligand complexes Download

Datos Proteina-Proteina

• RMSD and Global energy values of the docking solutions Download
• Protein-Protein complexes Download

Datos Dinamica Molecular

• Molecular Dynamic Data: Download