README.md

Small RNA Computational Biology

2017 EMBO Bioinformatics and Genome Analysis, Thessaloniki, Greece.

Instructors: Anton Enright & Dimitrios Vitsios

Anton Enright (aje@ebi.ac.uk)	Dimitrios Vitsios (dvitsios@ebi.ac.uk)

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EMBL - European Bioinformatics Institute,
Wellcome Trust Genome Campus,
Hinxton, Cambridge, CB10 1SA, UK.

Department of Pathology,
Tennis Court Road,
Cambridge, UK.

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List of Practicals:

1. Introduction to R/BioConductor

2. Basics of SmallRNA Sequencing Data Analysis

   • SmallRNA Sequencing - Basic Analysis and QC
   • SmallRNA Sequencing - Mapping and Statistical analysis of count data

3. Worked Example for microRNA Target Analysis - MiR-210 in Breast Cancer

   • SmallRNA Sequencing - Breast Cancer miR210 Samples - Participant Driven
   • Mini mapping practical using HiSat2
   • mRNA Sequencing - Breast Cancer miR210 Samples

4. MicroRNA Target Analysis using mRNASeq and smallRNA Seq combined

5. de novo prediction of microRNAs from sequencing data

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Useful resources:

• Enright Lab
• R Cran
• R Studio
• BioConductor
• DESeq2 Manual
• ChimiRa Webserver
• miRnovo Webserver
• miRBase
• Legacy Course Material, pre 2017