Basic NGS and RNAseq (bNGS)

This course has not been activated yet. Activation is forseen for autumn/winter 2018


Basic course of Next Generation Sequencing and mRNAseq procedures. The course is both made of theory and practice: it is designed for life science professional (biologists, technicians, clinicians, researchers) without particular bioinformatics experience. Besides normal skills of computer usage, such as creating and navigating through files and folders and using spreadsheets, participants should be familiar with the biological methods used for gene expression such as RTqPCR and microarrays. The course will introduce them to the basic concepts and caveats of next generation sequencing (how it works, coverage, NGS experimental design) and to the underlying statistics. It will then spend the rest of the time analysing a detailed RNAseq protocol through all its steps: base calling, quality control, mapping, counting, quantification, annotation and differential expression at the gene level. Some analytical procedures will be performed using the Galaxy platform (either the public online instance, or our private servers), while a few methods will be experimented live using the statistical scripting software “R” with “Rstudio”, as long as a number of other specific open source software (no previous experience with R or Linux-bash is strictly required, but it would obviously help).

Sequencing de-facto replaced and surpassed microarrays for gene expression applications. This course will be useful for researchers willing to be introduced to simple yet rigorous gene expression analyses by NGS.  The ideal participants 1) are looking for a thorough introduction to RNAseq with concepts that can be broadly applied also to other NGS applications (DNAseq, ChIPseq) and 2) they need to work side by side with bioinformaticians delivering NGS results.