Computational Biomedicine Practical Seminar

In conjunction with Prof. Schuppert

Dates: 13/5 to 17/5
Time: 9:00-12:30 and 13:30-17:00
Location: MTZ Seminar Room 3rd Floor

The course will cover theoretical and practical aspects of the analysis and modelling of gene expression, regulatory and functional data. The practical part will make use of programming languages R and matlab or the genomic tool IGV.



13/5 Gene Expression Analysis  Instructors
9:00-10:30 Introduction to R [slides] Ivan Costa
10:30-12:30 Analysis of Gene Expression [slides|case study|data] Ivan Costa / Sonja Hanzelmann
13:30-17:00 Differential Gene Expression [slides|case study] Sonja Hanzelmann

14/5 Functional Analysis  Instructors
9:00-10:30 Functional Analysis with GSEA  [slides] Sonja Hanzelmann / Ivan Costa
10:30-12:30 Case Study – Functional Analysis  [case study] Sonja Hanzelmann
13:30-15:00 Next Generation Sequencing / DNA Sequencing [slides|data] Manuel Allhoff
15:00-17:00 Regulatory Genomics / ChIP Sequencing [slides|data] Eduardo Gusmao


15/5 Multivariate Statistics & Genome-wide Expression  Instructors
9:00-10:30 Multivariate Statistics & Genome-wide Expression Prof. Schuppert
10:30-12:30 Case Study [tasks|log|Matlab Intro Start|Classifier|data]
13:30-17:00 Case Study  [tasks|log]   

16/5 Pattern Recognition  Instructors
9:00-10:30 Pattern Recognition Prof. Schuppert
10:30-12:30 Case Study [tasks|log|data|data2]
13:30-17:00 Case Study [tasks|log]    


17/5 Modelling of Biological Mechanisms  Instructors
9:00-10:30 Modelling of Biological Mechanisms Prof. Schuppert
10:30-12:30 Case Study [tasks|log|data]
13:30-17:00 Case Study [tasks|log]


Computers and Software

Participants are expected to bring their own laptop and updated software pre-installed.  Click on one of the links below for software installation instructions:

Additional Material