Gene Expression made Useful Easily: Tools and Database of Bgee

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

Overview

This is a course on bioinformatics resources taught by the developers of the resources. Bgee is a curated database of gene expression in animals, including model species such as human, mouse or drosophila, and others such as livestock, primates, or fishes. Bgee integrates information from single-cell and bulk RNA-seq, microarrays, and in situ hybridization. These data are available through a web interface and an R package. Bgee also includes tools which use these data, such as TopAnat or Expression Comparison, and allows integration with users' own data through another R package. In this course, we will present the curated and pre-analysed gene expression data in Bgee.

Audience

This course is targeted to life scientists who need to retrieve curated gene expression, obtain expression-based knowledge on genes of interest, or compare expression between genes and between species.

Learning outcomes

At the end of the course, the participants are expected to:

• Learn how to detect active genes from bulk or single-cell RNA-Seq
• Learn what information on expression Bgee can provide
• Understand the added value of Bgee data curation and analysis
• Learn about Bgee webtools and their utility to research

Prerequisites

Technical

This course will be streamed, you are thus required to have your own computer with an internet connection.

Schedule - CET time zone

9:00-12:15 CET time zone - Online lectures (Frédéric Bastian and Marc Robinson-Rechavi)

• 9:00-9:15 Welcome
• 9:15-10:00 Overview of Bgee
• 10.00-10:15 Questions and answers
• 10:15-11:00 Manipulating integrated data
• 11:00-11:15 Questions and answers
• 11:15-12:00 Manipulating processed data
• 12:00-12:15 Questions and answers

Application

Attendance to lectures are free-of-charge, however registration is mandatory. Deadline for registration is set to 06/05/2022.

You will be informed by email of your registration confirmation.

If you are interested to attend the lectures and practicals, apply here.

Venue and Time

This course will be streamed for registered participants.

The lectures will start at 9:00 and end around 12:15 CET. Precise information will be provided to the participants on due time.

Additional information

Coordination: Valeria Di Cola (valeria.dicola@sib.swiss)

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