This workshop will provide training on well-established resources to analyze protein structures using computational tools. The topics will involve the use of bioinformatics tools and databases, as well as background information on simulations using protein structures. The workshop will be instructed by trainers from the Protein Data Bank in Europe (PDBe), from CINVESTAV Unit for Advanced Genomics (LANGEBIO) in Mexico, as well as local expert researchers from the Max Planck Tandem Group of Biophysics of Tropical Diseases in Colombia working on protein simulations. Some of the examples used during the sessions will fall under the UN's sustainable development goal of communicable diseases prevention and treatment.

Who is this course for?

This workshop is suitable for academics of Latin American and Caribbean countries. Early career researchers, including graduate students, postdocs and professors working, or planning to start working in Structural Bioinformatics, are warmly encouraged to apply. Knowledge about molecular biology is required, as well as familiarity with basic bioinformatics concepts and undergraduate-level knowledge of protein structures. We expect to have around 20-25 participants from Colombia and other Latin American and Caribbean countries. 
 

Please note this workshop will be delivered in English, however some of our trainers are fluent Spanish speakers and can offer support where needed.

What will I learn?

Learning outcomes

After this course you should be able to:

• Access protein structure repositories to understand their impact in molecular functions
• Apply structural bioinformatics tools to assess the quality of structures, as well as other tasks such as structural comparisons
• Model proteins and variations using structural information to study potential effects
• Implement basic ligand-based computational approaches
• Simulate protein structures to study folding and binding mechanisms

Course content

During this course you will learn about: 

• Structural Bioinformatics resources: PDBe databases, PDBe Knowledge base, PDBe tools
• Modelling proteins and variations: Modeller, Rosetta, PDBsum, Annotation resources
• Basic simulation of proteins: GROMACS
• Unix environment and auxiliary commands

Trainers