Where: Biopark Charleroi , Gosselies
When: December, 2016
Experts: Catharina Olsen
and Antonio Colaprico
Academic supervisor: Gianluca
Bontempi
Machine Learning Group,
Planning & Materials
¤ Day 1
o
Introduction to R (1.5h): slides code script1.R data
o
Analyses (3.5h) slides code expression data GO annotation
o
Introduction
o
Differential expression analysis
o
Enrichment analysis
o
Clustering, dendrograms and heatmaps
o
Principal component analysis
o
Survival analysis
o
Introduction
o
TCGA
¤ Day 2
o
TCGAbiolinks functionalities in R (3h): slides code data
o
Different cancer datatypes
o
Data retrieval code session 2
o
Functionality overview
o
Case studies (focus on Case Study 1: BRCA GE and Survival)
o
Analyses with graphical interface: TCGAbiolinksGUI (3h): slides data
o
Integrative analysis: epigenomic and transcriptomics
¤ R libraries: day 1 day 2 TCGAbiolinksGUI
¤ Package vignette and vignette source
R software