03 - 05 July 2023
Bern
Application deadline:
19 June 2023
Cancellation deadline:
19 June 2023
Rachel Marcone, Geert van Geest and Tania Wyss
Omics data analysis
Intermediate
Academic: 300 CHF
For-profit: 1500 CHF
0.75 ECTS credits


Applications are closed because the course is full with a long waiting list or has just passed. to receive notification when a new course is scheduled.
CLOSED

Next course(s):
13 - 15 Nov 2023 Bern
18 - 20 Mar 2024 Bern
29 - 31 Oct 2024 Bellinzona

The videos of the lectures can be found on the SIB YouTube channel.

Overview

Single-cell RNA sequencing (scRNAseq) allows researchers to study gene expression at the single cell level. For example, scRNAseq can help to identify expression patterns that differ between conditions within a cell-type. To generate and analyze scRNAseq data, several methods are available, all with their strengths and weaknesses depending on the researchers’ needs. This 3-day course will cover the main technologies as well as the main aspects to consider while designing a scRNAseq experiment. In addition, it will cover the theoretical background of analysis methods with hands-on practical data analysis sessions applied to droplet-based methods.

Audience

This course is intended for life scientists and bioinformaticians familiar with "Next Generation Sequencing" who want to acquire the necessary skills to analyse scRNA-seq gene expression data.

Learning objectives

At the end of the course, participants will be able to:

  • distinguish advantages and pitfalls of scRNAseq
  • design their own scRNA-seq experiment
  • apply a downstream analysis using R

Knowledge / competencies prerequired (Mandatory)

Participants should already have a basic knowledge in Next Generation Sequencing (NGS) techniques, or have already followed the "NGS - Quality control, Alignment, Visualisation". Knowledge in RNA sequencing is a mandatory. A basic knowledge of the R statistical software is required. Test your R skills with the quiz here, before registering.

Technical requirements

Attendees should have a Wi-Fi enabled computer. An online R and RStudio environment will be provided. However, in case you wish to perform the practical exercises on your own computer, please take a moment to install the following before the course:

  • R version > 4.0.
  • Latest RStudio version, the free version is perfectly fine.

Program

Program will be communicated in due time. Program of past occurences can be found on GitHub.

Application

The registration fees for academics are 300 CHF and 1500 CHF for for-profit companies. While participants are registered on a first come, first served basis, exceptions may be made to ensure diversity and equity, which may increase the time before your registration is confirmed.

Applications will close once the places will be filled. Deadline for registration and free-of-charge cancellation is set to 19/06/2022. Cancellation after this date will not be reimbursed. Please note that participation in SIB courses is subject to our general conditions.

You will be informed by email of your registration confirmation. Upon reception of the confirmation email, participants will be asked to confirm attendance by paying the fees within 5 days.

Venue and Time

This course will take place in person at the University of Bern.

It will start at 9:15 CEST and end around 17:00 CET every day.

Please note that a social "apero" will be organised on 3 July after the course.

Precise information will be provided to the participants in due time.

Additional information

Coordination: Diana Marek, SIB Training group.

We will recommend 0.75 ECTS credits for this course (given a passed exam at the end of the course).

You are welcome to register to the SIB courses mailing list to be informed of all future courses and workshops, as well as all important deadlines using the form here.

Please note that participation in SIB courses is subject to our general conditions.

SIB abides by the ELIXIR Code of Conduct. Participants of SIB courses are also required to abide by the same code.

For more information, please contact training@sib.swiss.