EuGESMA Bioinformatics School 2012

Modena, 16-19 September 2012

Università di Modena e Reggio Emilia

 

The Focus of the Course

Next Generation Sequencing platforms changed landscape of transcript analysis and allowed deepening the explorative power of conventional microarray technology, both for mRNAs and short non-coding RNAs (miRNAs). EuGESMA Cost Action organizes this hands-on course with trainers from the Bioinformatics and Genomics Unit of the University of Torino and guest speakers from Illumina. The course is suitable for biologists who are new to RNA-seq technology. Additionally, if you have analyzed gene expression data from microarrays and would now like to do projects using RNA-seq technology, then this workshop will enable you to gather information on the critical issue on RNA-seq from sample prep to data analysis. The course is based on the use of Bioconductor open-source software. However, R coding skill is not required since all the analyses will be performed using oneChannelGUI, a graphical interface to Bioconductor tools, designed for life scientists who are not familiar with R language. Software and data will be provided by the trainers.

Lectures

  • Introduction to RNA-seq technology
  • Tools for mapping of NGS data
  • Statistical analysis of miRNA-seq data
  • Statistical analysis of RNA-seq data

Course Skeleton

The course consists of 4 morning lectures, 2 per day (8:30am - 12:30am), and 3 lab tutorials in the afternoon (2:30pm – 6:30pm) distributed on 2 days (Monday to Tuesday).

Computer tutorials

The course is structured to provide practical analysis skill to the attendees. Two afternoons are dedicated to computer tutorials. Participants are not required to bring their own laptops since tutorials will be held in a fully equipped computer room. The labs will be worked on in-group with expert guidance (all the lecturers from the morning sessions plus teaching assistants). The trainers will provide datasets, although students are welcome to bring their own data. The practical sections are based on the use of Bioconductor open-source software solutions. However, R coding skill is not required since all the analyses are performed using oneChannelGUI, a graphical interface to Bioconductor tools, designed for life scientists who are not familiar with R language.

Internet access

Please note: the course venue will not be able to provide you with Internet access.

Meals and accomodation

Coffee breaks, lunches, and dinners and will be provided on all days for the duration of the course.