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Bioinformatics Training

 

These courses aim to familiarise the participants with advanced data analysis methodologies and provide hands-on training on the latest analytical approaches for specific types of biological data.

The analysis of high-throughput sequencing data is the most popular topic, as reflected by the wide range of courses covering this subject (e.g. RNA-seq, ChIP-seq, variation, DNA methylation, whole exome sequencing analysis) but the spectrum of training courses on offer is much wider.


Bulk RNA-seq analysis

This course starts with a brief introduction to RNA-seq and discusses quality control issues. Next, we will present the alignment step, quantification of expression and differential expression analysis. For downstream analysis we will focus on tools available through the Bioconductor project for manipulating and analysing bulk RNA-seq.

For additional information and to register your interest, follow this link.

 

 


Single-cell RNA-seq analysis

In this course we will be surveying the existing problems as well as the available computational and statistical frameworks available for the analysis of scRNA-seq.

For additional information and to register your interest, follow this link.

 

 


Working with Bacterial Genomes

This comprehensive course equips you with essential skills and knowledge in bacterial genomics analysis, primarily using Illumina-sequenced samples. You'll gain an understanding of how to select the most appropriate analysis workflow, tailored to the genome diversity of a given bacterial species.

For additional information and to register your interest, follow this link.

 

 


Analysis of ChIP-seq Data with SeqMonk

Chromatin immunoprecipitation followed by sequencing (ChIP-seq) is a method used to identify binding sites for transcription factors, histone modifications and other DNA-binding proteins across the genome. In this course, we will cover the fundamentals of ChIP-seq data analysis, from raw data to downstream applications.

For additional information and to register your interest, follow this link.

 

 


Analysis of DNA methylation using sequencing

This course will cover all aspects of the analysis of DNA methylation using sequencing, including primary analysis, mapping and quality control of BS-Seq (Bisulfite-Sequencing) data, common pitfalls and complications.  

For additional information and to register your interest, follow this link.

 

 


Expression proteomics analysis in R

This course will present a set of R/Bioconductor packages to access, manipulate, visualise and analyse mass spectrometry (MS) and quantitative proteomics data.

For additional information and to register your interest, follow this link.

 

 


Extracting biological information from gene lists

This course looks at the various software packages, databases and statistical methods which may be of use in performing such an analysis. 

For additional information and to register your interest, follow this link.

 

 


Quality Control in Sequencing Experiments

This course covers the potential pitfalls of short-read sequencing studies and provides options for visualisation and quality control (QC) for early detection and diagnosis of issues.

For additional information and to register your interest, follow this link.

 

 


Metabolomics data analysis 

The aim of this course is to provide an overview of metabolomics and its applications in life sciences, clinical and environmental settings

For additional information and to register your interest, follow this link.

 

 


Metagenomics data analysis

This course will focus on the theory and applications of metagenomics, for the analysis of complex microbiomes (microbial communities). 

For additional information and to register your interest, follow this link.

 

 


Foundations of Phylogenetic Inference

This course will provide training for bench-based biologists to use molecular data to construct and interpret phylogenies, and test their hypotheses.

For additional information and to register your interest, follow this link

 

 


Building Computational Pipelines with Snakemake

 

This 1-day workshop will cover the principles for building workflows using Snakemake, as well as more advanced strategies to fully customise, automate and scale your analysis.

For additional information and to register your interest, follow this link.

 


Managing Bioinformatics Software and Pipelines

Setting up a computer for running bioinformatic analysis can be a challenging process. Most bioinformatic applications involve the use of many different software packages, which are often part of long data processing pipelines. In this course we will teach you how to overcome these challenges by using package managers and workflow management software.

For additional information and to register your interest, follow this link.

 

 


Protein Structure Modelling

This course covers analytical approaches for the interpretation of biomacromolecular structures.

This two-day course covers how to computationally predict the 3D structure of proteins from their amino acid sequences. We will focus on AlphaFold, a software that has revolutionised this process due to its outstanding (near-experimental) prediction accuracy. Other key aspects will be covered such as retrieving structural information from public databases, evaluating the quality of the predicted models, model visualisation with PyMOL, multimer predictions, prediction of ligand binding sites and docking. After this course you should be able to produce 3D predictions of your proteins, while critically evaluating the output of the methods covered in the course.

For additional information and to register your interest, follow this link.

 

 


You may also find the following link useful:

Data Carpentry