Introduction to bulk RNA-Seq: From Quality Control to Pathway Analysis (SIB)

25-26 September 2025

Monique Zahn, SIB Training Group 

Wandrille Duchemin, Bioinformatics Trainer & Computational Biologist, SIB

Course webpage (SIB): https://www.sib.swiss/training/course/20250925_IRNAS

This two-day course will present the theory and bioinformatics tools required to analyze RNA-seq gene expression data. The course will present the theory and bioinformatics tools required to analyse RNA-seq gene expression data, from the raw data until the biological interpretation.

The following topics will be discussed:

- Quality control

- Mapping to genomes & transcriptomes

- Read counting, gene & exons differential expression analysis

- GO enrichment and pathway analysis

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

- Describe advantages and pitfalls of RNA sequencing

- Design their own experiment

- Perform the downstream analysis using command line software (QC, mapping, counting, differential expression analysis, pathway analysis, etc) - Critically assess the quality of their results at each step of the downstream analysis

Please refer to the SIB webpage: https://www.sib.swiss/training/course/20250925_IRNAS

University of Basel

Reimbursements for CUSO Students:

> Train ticket, 2°class, half-fare from your institution to the place of the activity 

> Accomodation: 1 night in Basel, up to 100 CHF (night + taxes + breakfast)

Reimbursement of your travel tickets can be asked online through your MyCUSO. 

See HERE for the procedure.

Reimbursement of your accomodation can be asked by filling in the reimbursement form (will be provided shortly before the activity to all registered participants)

For any question concerning reimbursement please contact the CUSO MPS coordinator Debora Zoia

Other CUSO Students: please contact the coordinator of your Program.

PLEASE REGISTER THROUGH THE SIB WEBPAGE mentioning your CUSO Program at the moment of registration: https://www.sib.swiss/training/course/20250925_IRNAS

> 10 places available for CUSO Students> minimum 6 CUSO participants !

Registration costs: free (CUSO covers the registration fees)

Deadline for registration: 15 September 2025

Cancelation fees (for no-show or cancelation after the 15 of September 2025) : 50 CHF

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