Schedule BioSB course Bulk and Single-Cell RNA-seq Data Analysis (June 01-05, 2026) 

More information about this course can be found through this link.

DayWhenWhatWho
Day 109:15 – 09:30WelcomeModerator: Miaomiao Zhou
Day 109:30 – 10:00Short introduction to platforms, data sets and toolsVictoria Aguilar Pontes
Day 110:00 – 10:45Longread RNA seq- what if reads are not short?Miaomiao Zhou
Day 111:15 – 12:00Implementation of RNA-seq analysis pipeline with (plant) pathogen studiesVictoria Aguilar Pontes
Day 113:00 – 14:00RNA-seq data analysis: “end to end” workflowVictoria Aguilar Pontes
Day 114:30 – 17:00Hands-on: RNA-seq data using IGVVictoria Aguilar Pontes
Day 208:45 – 09:00WelcomeNikolaos Strepis
Day 209:00 – 09:45Recap of the previous dayMiaomiao Zhou
Day 210:00 – 12:30Hands-on: What to do with your first RNA-seq data set? (with R)Nikolaos Strepis
Day213:30 – 14:30Clustering and dimensionality reductionAndrew Stubbs
Day 215:00 – 17:00Pathway & network analysisMartina Summer-Kutmon
Day308:45 – 09:00WelcomeWillem de Koning
Day309:00 – 09:45Recap of the previous dayNikolaos Strepis
Day 309:45 – 10:30Lecture: scRNA-seq platformsGeorge Karakatsoulis
Day 310:45 – 12:30Lecture: Preprocessing & quality controlGeorge Karakatsoulis
Day 313:30 – 14:30Hands-on: Preprocessing & quality controlGeorge Karakatsoulis
Day 314:45 – 15:45Lecture: Normalization & dimensionality reductionWillem de Koning
Day 315:45 – 17:00Practical: Normalization & dimensionality reductionWillem de Koning
Day408:45 – 09:00WelcomeGeorgios Gavriilidis
Day 409:00 – 09:45Recap of the previous dayWillem de Koning
Day 409:45 – 10:30Lecture: Clustering and cell annotationGeorgios Gavriilidis
Day 410:30 – 11:45Practical: Clustering and cell annotationGeorgios Gavriilidis
Day 411:45 – 12:30Lecture: DEG AnalysisGeorge Karakatsoulis
Day 413:00 – 14:30Practical: DEG analysisGeorge Karakatsoulis
Day 414:45 – 15:45Lecture: Trajectory inferenceGeorgios Gavriilidis
Day 415:45 – 17:00Practical: Trajectory inferenceGeorgios Gavriilidis
Day 508:45 – 09:00WelcomeAndrew Stubbs
Day 509:00 – 10:30Recap of the course – QnAAndrew Stubbs
Day 510:45 – 12:00AI single cell (What AI can do for you)Nikolaos Strepis
Day 513:00 – 14:30Journal clubMiaomiao Zhou & Andrew Stubbs
Day 514:45 – 15:45Journal clubMiaomiao Zhou & Andrew Stubbs
Day 516:00 – 17:00Wrap up and goodbyeMiaomiao Zhou & Andrew Stubbs