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Single cell RNA-seq data analysis
Date: 28.09.2017 9:00 - 29.09.2017 17:00
Location details: The event is organised at the CSC Training Facilities located in the premises of CSC at Keilaranta 14, Espoo, Finland. The best way to reach us is by public transportation; more detailed travel tips are available.
Language: english-language
lecturers: Tallulah Andrews (Sanger Institute)
Jenni Westoby (Sanger Institute)
Gioele La Manno (Karolinska Institute)
Eija Korpelainen (CSC)
Maria Lehtivaara (CSC)
Price: The registration fee is 60 euros + VAT per day. DPBM graduate school students can register for free, because DPBM pays their fee directly.
The fee covers morning and afternoon coffees.
The seats are filled in the registration order. If a cancellation is received five (5) business days prior to the course, the course fee will be refunded with the exception of a handling fee of 10 €. For no-shows and cancellations after that no refunds will be made. Registration can be transferred to someone else from the same organization without additional charge.

Payment can be made with electronic invoicing, credit card, or direct bank transfer. Note that for electronic invoicing you need the operator and e-invoicing address (OVT code) of your organization. Please also note that invoice reference is needed for electronic invoicing in your organization, so please have this available when registering.
Additional Information

This one day hands-on course introduces the participants to single-cell RNA-seq data analysis concepts and tools.

Depending on your background, choose EITHER:

1) RNA-seq data analysis with Chipster (Friday, no prerequisites) OR

2) Single cell RNA-se data analysis with R (Thursday, previous experience with R and command line tools required).

Note that you can only participate on one of the days -this is to ensure the opportunity to partake to larger audience, and because the course contents will overlap.

This course is organized in collaboration with the Doctoral Programme in Biomedicine (DPBM) of University of Helsinki. DPBM participants, please sign up ONLY through your course form.

The Single Cell Symposium arranged on Wednesday 27.9. at Biomedicum 1 (Meilahti campus) is open to everyone. Sign up for the symposium here.

RNA-seq data analysis with R

On Thursday the teaching is provided by Tallulah Andrews and Jenni Westoby from Sanger Institute. They will discuss some of the questions that can be addressed using scRNA-seq as well as the available computational and statistical methods.

Previous experience/basic skills of R and command line tools are required. 

RNA-seq data analysis with Chipster

On Friday, the free and user-friendly Chipster software is used in the exercises, so no previous knowledge of Unix or R is required, and the course is thus suitable for everybody. We will learn to preprocess DropSeq data (from raw FASTQ data into a digital expression matrix) and how to do clustering analysis with Seurat tools (10X Genomics data used in the exercises). Teaching is provided by Eija Korpelainen and Maria Lehtivaara, CSC. 

We will also hear a lecture from Gioele La Manno from Karolinska Institut. Topic of the lecture is "Introduction to Machine Learning".

Course materials