FlowJo: High dimensional analysis of flowcytometry data, Online Course

Course date: 06 July 2020 - 07 July 2020
Location: Online Teams

Click here for details of programme

FlowJo: "High dimensional analysis of flowcytometry data” - Online Course

Analysis of flow cytometry data is getting more and more complex due to increased parameters that can be measured on a single sample. High dimensional analysis software can help to properly and systematically analyze big flow cytometry datasets. 

This course on high dimensional analysis of flow cytometry data provides theoretical background in high dimensional analysis, will discuss the pros and cons of available software and help you decide what program is best for you.
Day 1 :  What is high dimensional analysis? What do you have to do with your samples, what kind of quality control, what kind of tools/methods are available, what are advantages and disadvantages of the respective methods. How do you decide what program is most suitable for you? 
Day 2: Will go into different programs that are generally used for high dimensional analysis of flow cytometry data, amongst others tSNE, Cyclospore, FlowSOM and Euroflow pipeline. The ins and outs, as well as the pro and cons of the programs will be discussed.

NB: we are planning a 3rd day with Flow Cytometry Analysis using FlowJo software, which will be organized later.

Monday 6th of July, day 1: Ins and outs of high dimensional analysis

10:00 - 10:15: Entering the course in Teams

                        Juan Garcia-Vallejo
10:15 - 10:30: Why is there a need for high-dimensional analysis techniques? (±15 min)

Katrien Quintelier
10:30 - 10:50: Introduction to machine learning concepts (±20 min) 
10:50 - 11:00: Moment where the student's questions can be discussed

Katrien Quintelier
11:15 - 12:00: Pre-processing & Quality control  (±45 min) 
12:00 - 12:15: Moment where the student's questions can be discussed 

Katrien Quintelier
13:15 - 14:00: Overview of available analysis methods and their main advantages and disadvantages  (±45 min) 
14:00 - 14:15: Moment where the student's questions can be discussed 

Juan Garcia-Vallejo
14:30 - 15:50: Example of an actual case study in which several of these techniques were applied  (±1h20 min) 
15:50 - 16:00: Moment where the student's questions can be discussed 

Tuesday 7th of July, day 2: Analysis tools for high dimensional analysis of flow cytometry data 

10.00 - 10.15       Entering the course in Teams 

                            Thomas Höllt, TU Delft     
10:15 - 11.00       T-SN /H-SNE analysis (more ‘basic’ tool and intro required for Cyclospore) 
11.15 - 12.00       Cytosplore (https://www.cytosplore.org)
12.15 - 13.00       Cytosplore (cont'd)

                           Sofie van Gassen, VIB Ghent             
13:45 - 14:30     FlowSOM     
14:45 - 15:30     FlowSOM (cont'd)

                           Vincent van der Velden, Dept. of Immunoloy, Erasmus MC
15.45: - 16:45    Clinical pipeline EuroFlow & Infinicyt 

Katrien Quintelier, VIB Ghent
Juan Garcia-Vallejo, Amsterdam UMC
Thomas Höllt, TU Delft     
Sofie van Gassen, VIB Ghent             
Vincent van der Velden, Erasmus MC
Organization Committee
Yvonne Müller
Jasper Rip
Denise van Uden
Wendy Unger
Elwin Rombouts
Vincent van der Velden
Frank van Vliet

Date, Time & Location
6th and 7th of July
10:00 – 17:00
The course will be given online with Microsoft Teams.

All participants will receive instructions about how to handle this. Therefor: deadline for participation is Tuesday 30 June, 23.59 hr. Participants who register later will be placed on the waiting list!

Full participation yields 0,6 ECTS

Course fees 
For non-commercial participants the course fee  €400/2 days
PhD students get a 50% discount and pay €200/ 2 days
Participants from the postgraduate school MolMed get a 100% discount and pay €0.
Master students, get a 50% discount and pay €200/ 2 days. 
Master students who have to pay the fee from their personal budget get a 75% discount and pay €100/ 2 days. 
If these financial requirements should pose a problem, please contact Frank van Vliet, managing director of the Erasmus Postgraduate School Mol Med, at: f.vanvliet@erasmusmc.nl

General information
Financial regulation of the Postgraduate School MolMed, from January 1st 2020, the following financial rules apply, but they may differ per course still. Look at the course fee of each course to be sure which discounts are really applied:
• Non-commercial course, symposium or workshop fee: €200/day, €750/week
• Participants of the postgraduate school MolMed: discount of 100%
• However, the Personal Leadership course and the workshops Photoshop/Illustrator/Indesign have to be paid from the ‘personal budget’ of employees, MolMed members and PhD students included. So they will receive an invoice from us which you have to pay and which will be reimbursed by your Department. When you will pay from your personal budget you need to provide us your home address details for the invoice. 
If there is no personal budget left, the MM-members get a discount of 100%.
• PhD students and Master’s students, regardless of institution: discount of 50%.
•The course fees of research master’s students will be paid by their master program at rate of €100/ECTS. For not I&I master students: please inform your master program in advance whether they agree to pay.
•Master’s students who are paying the fee from their private budget: discount of 75%. When you will pay from your personal budget you need to provide us your home address details for the invoice.
•However, 2 courses in statistics are paid centrally by the Dept. of Research policy for all PhD students from Erasmus MC! These are R and the SPSS course. So for Erasmus MC PhD students, these courses are always free, provided you are officially registered as a PhD student.
There is one fee for the entire course. There is no reduction for partial participation.
Commercial participants, companies & sponsors are invited to inquire about commercial tuition fees and about sponsoring.
All invoices will be sent by email to the mail address that you filled in upon registration. If this address is not correct we use your Erasmus MC address.

Those who register for a course, symposium or workshop agree with these financial conditions.


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