Mandatory registration by May 22nd 2021 23:59 CEST
Link: https://forms.gle/jYHBTNej7kDJ4QX96

Description

This summer school will cover theoretical and practical aspects regarding the analysis of immune cell migration and interaction using intravital microscopy and the application of new A.I.-based methods.
Basic knowledge in imaging is recommended.

Organizers. Dr. Santiago Fernandez Gonzalez, Dr. Diego Ulisse Pizzagalli, Pau Carrillo Barbera
Can apply. PhD students (3 ECTS)
Supported by. IRB PhD program    Cell Migration PhD program    USI - Biomedical PhD program    IMMUNEMAP consortia    Euler Institute

Program

DAY 1: June 14th. Introduction to intravital microscopy (IVM)

Learning objectives. Understanding the applications and advantages of intravital microscopy / Understanding the importance of Open Data research / Practice with the immunemap platform

9:00-9:30: Introduction of the tutors and the course.

9:30-10:30: Interactive activity to know each student and background.

10:30-11:00: Technical Introduction to IVM

11:00-12:00: Biological application of IVM

12:00-14:00: Lunch Break

14:00-15:00: Presentation of immunemap

15:00-17:00: Practical session 1: Use of immunemap

 

DAY 2: June 15th: Analysis with tracking

Learning objectives. Understanding which type of information can be extracted from IVM data using the classical image analysis pipeline, challenges and new perspectives

9:00-10:30: Classical image analysis pipeline

10:30-10:45 Coffee break

10:45-12:00: The relevance of cell tracking in life sciences

12:00-14:00: Lunch Break

14:00-16:00: Practical session 2: Analyzing cell migration with manual and automatic cell tracking

16:00-17:00: Discussion and networking activity

 

DAY 3: June 16th: Analysis without tracking

Learning objectives. Understanding how image processing techniques working at pixel-level can be applied to analyze IVM data without the usage of cell tracking

9:00-10:30: Advanced analysis - Theory

10:30-10:45 Coffee break

10:45-12:00: Image processing

12:00-14:00: Lunch Break

14:00-16:00: Practical session 2: Analyzing cell migration without tracking (Optical Flow, Colocalization, Heatmaps…)

16:00-17:00: Discussion and networking activity

 

DAY 4: June 17th:  Beyond tracking

Learning objectives. Understanding how computer vision methods for action recognition can be applied to analyze IVM data without the usage of cell tracking

9:00-10:30: Trends in computer vision methods – Theory

10:30-10:45 Coffee break

10:45-12:00: Application of computer vision methods to IVM data analysis and immunology

12:00-14:00: Lunch Break.

14:00-16:00: Practical session 2: Analyzing IVM data with action recognition

16:00-17:00: Discussion and networking activity

 

DAY 5: June 18th: Conclusion

09:00 – 12:00: Workshop - Analyze your own data (if you do not have we can provide or form groups)

15:00-16:00: Evaluation - Summer School Quiz

16:00 – 17:00: Concluding remarks

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