Section outline

  • Usual schedule:

    Start: 9:00

    End: between 17:00 and 18:00

    Lunch break: around 1h30

    Coffee breaks: usually 2x per day

    Dinner: around 20:00
    Free time / swimming pool: 18-20:00 (open from 8 to 21)


    Sunday

    • Until 18h: arrival of the participants, check-in

    • 18:45 Welcome drink and dinner


    Monday: Transcriptomics

    • 9:00 - 10:00 Introductory lecture: Vincent Gardeux, Laboratory of Systems and Genetics, EPFL / SIB, Lausanne, Switzerland.

    • 10:00 - 11:00 Quantification, QC & Normalization: Davide Risso, Department of Statistical Sciences, University of Padova, Italy.

    • 11:00 - 11:30 Coffee break

    • 11:30 - 12:30 Dimensionality reduction: Paulo Czarnewski, NBIS, Stockholm University, SciLifeLab, Stockholm, Sweden.

    • 12:30 - 14:00 Lunch break

    • 14:00 - 18:00 hands-on including a coffee break (David + Paulo)

    • 18:00 - 20:00 free time / spa 

    • 20:00 Dinner


    Tuesday: Transcriptomics

    • 9:00 - 10:00 Batch correction: Panagiotis Papasaikas, Computational Biology Group, Friedrich Miescher Institute for Biomedical Research / SIB, Basel. Switzerland.

    • 10:00 - 11:00 Clustering - methods overview: Charlotte Soneson, Computational Biology Group, Friedrich Miescher Institute for Biomedical Research / SIB, Basel, Switzerland.

    • 11:00 - 11:30 Coffee break

    • 11:30 - 12:30 Cell fate mapping and trajectories: Wouter Saelens, VIB-UGent Center for Inflammation Research, Gent, Belgium.

    • 12:30 - 14:00 Lunch break

    • 14:00 - 18:00 hands-on including a coffee break (Panagiotis, Charlotte, Wouter)

    • 18:00 - 20:00 free time / spa 

    • 20:00: special dinner - Cheese fondue


    Wednesday: Transcriptomics

    • 9:00 - Differential expression: Charlotte Soneson, Computational Biology, Friedrich Miescher Institute for Biomedical Research / SIB, Basel, Switzerland + short hands-on session.

    • ~12:30 Lunch break

    • Afternoon: Team activity

    • 18:30 - 19:30 Keynote lecture: Alejandro Sifrim, Laboratory of Reproductive Genomics, KU Leuven, Belgium.

    • 20:00 Dinner


    Thursday: Proteomics

    • 9:00 - 10:30 Transcriptome + proteome: Johan Reimegård, Uppsala University, SciLifeLab, Uppsala, Sweden.

    • 10:30 - 11:00 Coffee break

    • 11:00 - 12:30 Differential abundance and differential state analysis of single cell cytometry data, Mark Robinson & Helena Crowell, Statistical Genomics, University of Zurich / SIB, Zurich, Switzerland.

    • 12:30 - 14:00 Lunch break

    • 14:00-15:45 hands-on part 1

    • 15:45-16:15 coffee break

    • 16:15:18:00 hands-on part 2 (Mark, Helena, Johan)

    • 18:45 Dinner

    • <20:00 - 22:00 Special late opening of the spa


    Friday: Other omics and integration

    • 9:00 - 10:00 Data integration methods: Sebastien Smallwood, Friedrich Miescher Institute for Biomedical Research, Basel, Switzerland.

    • 10:00 - 11:00 Spatial mapping of scRNAseq: Lars Borm, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, Sweden.

    • 11:00 - 11:30 Coffee break

    • 11:30 - 12:30 Lineage tracing and scRNA: Maria Florescu, Hubrecht Institute, Developmental Biology and Stem Cell Research, Utrecht, Netherlands.

    • 12:30 - 14:00 Lunch break

    • 14:00 - 14:20 Conclusion and wrap up

    • 14:20 End of the event

    • 14:58 Train from Leysin-Feydey station