Here’s the Computational Biosciences course’s program

Check all the importante dates and every module of UCIBIO’s online course. All researchers and students are invited to learn how to use HPC systems to boost their projects. See you all in september!

UCIBIO’s course, organized in partnership with the Euro CC project, runs from September 12 to 29, and will have six modules – each with 15 places to fill. We remind you that registration is required for each of the modules.

Here’s a short explanation with all the important information about each one of them:

Module 0 – Introduction to HPC

From 12 to 27 of september

This module is required  for the users who don’t have any knowledge about HPC

Online hand-on tutorial on which users will learn how to use the INCD HPC cluster.  

Module 1 – High-throughput Sequencing Data

12 of september

The development of high-throughput sequencing data has provided complete collections of genomes and transcriptomes, unveiling the complexity of cell biology and the underlying dysregulation of diseases. In this Module, researchers will learn how to obtain and analyze big data using High-Performance Computing. Such knowledge will provide them with the tools to complement their research projects with multi-omics profiles.

Module 2 – Transcriptome Assembly

13 of september

In this module, we will explore “hands on” the main steps needed to assemble transcriptomes using reference mapping as standard in model organisms from murines to the zebrafish; and, most importantly,  assembly when reference mapping is not available. Essential steps, requirements, validation and pitfalls will be addressed.

Module 3 – Phylogenomics

14 of september

Phylogenomics is the application of phylogenetic inference methods to large genomic datasets to infer the evolutionary history of species and their genes. These analyses provide the backbone of evolutionary studies aiming to study the speciation process, population demographics or gene family evolution. This module will provide the basics of phylogenetic inference using maximum-likelihood and Bayesian methods with a hands-on tutorial that takes advantage of HPC resources. 

Module 4 – Structure-based Virtual Screening

27 of september

Protein-ligand docking is applied to screen virtual databases of millions of compounds predicting ligand’s binding properties to specific biomolecular targets of interest. In this module, researchers will learn how to prepare large virtual screening runs using protein-ligand docking tools taking advantage of HPC resources to screening thousands or millions of molecules.

Module 5 – Molecular Dynamics

28 of september

Molecular Dynamics simulations enable the study of the dynamic properties of biological systems through time with atomistic detail. In this module, researchers will learn how to take advantage of HPC and GPU resources to simulate the interaction between a potential drug-like molecule and an enzyme of pharmacological interest at the nanosecond to microsecond time scale.

Module 6 – Hybrid Quantum Mechanics/Molecular Mechanics

29 of september

QM/MM methods allow the study of chemical reactions in large systems with great accuracy. This hybrid approach allows the study of the catalytic site with quantum mechanics, while the rest of the system is treated with classical molecular mechanics. This module will introduce the basics of QM/MM simulations in the study of biomolecules using HPC resources.

You can apply here.