All those applying to attend this course will be registered and will receive the Zoom link to connect the day before the course.

Overview

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, and in situ hybridization. These data are available through a web interface, an R package, a SPARQL endpoint, and a JSON API. 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.

This 0.5-day course is taught by the developers of Bgee. In this course, the curated and pre-analysed gene expression data in Bgee will be presented.

Audience

This course is designed for PhD students, postdoctoral and other researchers in the life sciences from both academia and industry 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:

Find active genes from bulk or single-cell RNA-Seq.
Describe information on expression that Bgee can provide in model and non-model species.
Understand the added value of Bgee data curation and analysis.
List the Bgee webtools and state their utility to research.

Prerequisites

This course is designed for beginners.

Technical

You are required to have your own computer with an Internet connection. All the suggested resources are available without you having to install or code anything.

Schedule - CET time zone

Time	Activity
9:00-9:10	Welcome
9:10-9:40	Overview of Bgee
9:40-9:50	Q&A
9:50-10:35	Present and absent calls from transcriptome data
10:35-10:50	Q&A
10:50-11:05	Break
11:05-11:35	Data integration in Bgee
11:35-11:45	Q&A
11:45-12:15	Bgee tools

Application

All those applying to attend this course will be registered and will receive the Zoom link to connect the day before the course. Applications will close on 05/05/2026.

You will be informed by email of your registration confirmation.

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

Venue and Time

This course will be streamed using Zoom. It will start at 9:00 CET and end at 12:15 CET.

All registered participants will receive the information for remotely connecting to the online meeting room by email one working day before the webinar.

Additional information

Coordination: Monique Zahn, SIB Training group.

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.