10 November - 14 November 2025
Hands-on flow cytometry: learning by doing!
Daniel Gimenes, Diana Ordonez, Steffen Schmitt
Description OverviewSpeakers and trainersProgrammePractical informationSponsorsMedia kit Overview Course overview Flow cytometry is a highly effective method for analysing individual cells that has become widely used in the fields of life sciences and medicine By utilising flow cytometry researchers can accurately identify and measure specific cell populations within complex mixtures as well as assess cell cycle progression proliferation status and expression of fluorescent markers Our course aims to provide a comprehensive understanding of the underlying principles of flow cytometry while also emphasising practical considerations related to the most frequently used assays Through a combination of theoretical instruction and hands on training students will gain the knowledge and skills necessary to effectively design execute and interpret flow cytometry experiments Audience The course is designed for researchers at any step of their career and will cover the subject from basic principles to complex assays Prior basic working knowledge of flow cytometry data acquisition or analysis software DIVA FlowJo is of advantage but not strictly a must What past participants say about the course My experience at EMBL was not only delightful but also intellectually invigorating The seamless integration of theory and hands on sessions provided a comprehensive learning experience It proved to be an indispensable opportunity for exploring both fundamental and specialised aspects of flow cytometry techniques Undoubtedly this course was a unique and enriching chapter in my academic journey Shariqa Khawaja Aga Khan University Pakistan The course Hands on Flow Cytometry was a unique experience It gave me the possibility to meet the best specialists in the field and to ask and discuss every question I could bring up on the table The trainers were extremely knowledgeable and kind and it was a great pleasure to talk with each of them The theoretical part covered from basic principles to important practical tips and tricks for the best possible experimental design In addition the newest cutting edge technologies were well explained and discussed The practical part was well suited for my needs and I could directly use the experiments and analysis we did in my everyday in the lab I am extremely grateful that I was selected as a participant and I can only say thank you to the trainers for their patience and generosity Milena Petkova Uppsala University Sweden Speakers and trainers Speakers trainers and staff Jochen Barths ProSort France Michael Bonadonna EMBL Heidelberg Germany Alex Cabrera Nu ez EMBL Heidelberg Germany Gelo dela Cruz University of Copenhagen Denmark Marcus Eich German Cancer Research Center DKFZ Germany Sara Garcia Garcia Amsterdam UMC The Netherlands Jes s Gil Pulido Cytek Biosciences Germany Daniel Gimenes EMBL Heidelberg Germany Sophie Kalmbach Thermo Fisher Germany Diana Ordonez German Cancer Research Center DKFZ Germany Ioannis Panetas FlowJo Informatics BD Germany Remote speaker Gerald Pfister EMBL Rome Italy Beata Ramasz EMBL Heidelberg Germany Steffen Schmitt German Cancer Research Center DKFZ Germany Daniel Vocelle St Jude Children s Research Hospital USA Virtual speaker Scientific organisers Alex Cabrera Nu ez EMBL Heidelberg Germany Daniel Gimenes EMBL Heidelberg Germany Diana Ordonez German Cancer Research Center DKFZ Germany Steffen Schmitt German Cancer Research Center DKFZ Germany Course organisers Swetlana Krez Training Lab Technician EMBL Heidelberg Germany Nathalie Sneider Course and Conference Manager EMBL Heidelberg Germany Michelle Steinhauer EMBL Heidelberg Germany Programme Are you on social media Post using EMBLCytometry and don t forget to tag EMBLEvents Some pre course work such as watching pre recordings protocol reading and computational exercises with estimated time 0 10 hours will be required and will be shared in advance of the course Some speakers may need to join virtually to give their lecture or Q A and the programme is subject to change Day 1 Monday 10 November 2025 Time Europe Berlin SessionLocation08 40Bus from hotel to EMBL ATC EntranceISG Hotel09 00 09 30Welcome introduction and safety briefingATC Flex Lab09 30 10 45Flash Talks by participants organisers trainers speakersATC Flex Lab10 45 11 15Coffee BreakATC Flex Lab11 15 12 00Lecture Fluidics and opticsGelo dela Cruz University of Copenhagen DenmarkATC Flex Lab12 00 12 45Lecture Fluorescence and PMTs detectorsJochen Barths ProSort France ATC Flex Lab12 45 13 45LunchEMBL Canteen13 45 14 30Lecture Data generation and data displayGelo dela Cruz University of Copenhagen DenmarkATC Flex Lab14 30 16 00Practical Session Instrument overview and assessing performanceTraining Lab B16 00 16 30Coffee BreakATC Flex Lab16 30 17 30Lecture Sample PreparationAlex Cabrera Nu ez EMBL Heidelberg GermanyATC Flex Lab17 30 18 30Lecture The essentials of gating FMO and gating controlsBeata Ramasz EMBL Heidelberg GermanyATC Flex Lab18 30 19 30DinnerEMBL Canteen19 30Departure to HotelATC Entrance Day 2 Tuesday 11 November 2025 Time Europe Berlin SessionLocation08 40 Bus from hotel to EMBL ATC EntranceISG Hotel08 55 09 00Overview of the dayATC Flex Lab09 00 10 00Lecture Fluorescence spillover and compensationGerald Pfister EMBL Rome ItalyATC Flex Lab10 00 10 30Coffee BreakATC Flex Lab10 30 11 15Lecture Experimental design for multi color flowDiana Ordonez German Cancer Research Center GermanyATC Flex Lab11 15 12 30Workshop Panel designDiana Ordonez German Cancer Research Center GermanyMichael Bonadonna EMBL Heidelberg GermanyATC Flex Lab12 30 13 30LunchEMBL Canteen13 30 15 30Practical Multi color staining Group 1 Practical Data analysis with FlowJo Group 2 Group 1 Training Lab BGroup 2 Computer Training Lab15 30 16 00Coffee Break ATC Flex Lab16 00 18 00Practical Data analysis with FlowJo Group 1 Practical Multi color staining Group 2 Group 1 Computer Training LabGroup 2 Training Lab B18 00 19 30DinnerATC Rooftop Lounge19 30Departure to hotelATC Entrance Day 3 Wednesday 12 November 2025 Time Europe Berlin SessionLocation08 40 Bus from hotel to EMBL ATC EntranceISG Hotel08 55 09 00Overview of the dayATC Flex Lab09 00 09 30Q A sessionATC Flex Lab09 30 10 30Lecture Spectral flow cytometryJes s Gil Pulido Cytek Biosciences GermanyATC Flex Lab10 30 11 00Coffee break and group photoATC Flex Lab11 00 12 00Lecture Cell cycle analysisDiana Ordonez German Cancer Research Center GermanyATC Flex Lab12 00 13 00LunchEMBL Canteen13 00 15 00Practical Cell cycle samples Group 1 Practical Data analysis with FlowJo session 2 Group 2 Group 1 Training Lab BGroup 2 Computer Training Lab15 00 15 30Coffee breakATC Flex Lab15 30 17 30Practical Data analysis with FlowJo session 2 Group 1 Practical Cell cycle samples Group 2 Group 1 Computer Training LabGroup 2 Training Lab B17 30 18 30DinnerEMBL Canteen18 30Departure to hotel and free eveningATC Entrance Day 4 Thursday 13 November 2025 Time Europe Berlin SessionLocation08 40Bus from hotel to EMBL ATC EntranceISG Hotel08 55 09 00Overview of the dayATC Flex Lab09 00 10 00Lecture Assessing cell deathSteffen Schmitt German Cancer Research Center GermanyATC Flex Lab10 00 10 30Coffee BreakATC Flex Lab10 30 12 30Practical Measuring apoptosisComputer Training Lab12 30 13 30LunchEMBL Canteen13 30 15 30Practical demonstration Imaging flow cytometry with CytpixSophie Kalmbach Thermo Fisher GermanyTraining Lab B15 30 16 00Coffee breakATC Flex Lab16 00 17 30Practical Image data analysis What s behind the dots Sara Garcia Garcia Amsterdam UMC The NetherlandsComputer Training Lab ATC Flex Lab17 30 18 30Lecture Imaging flow cytometryDaniel Vocelle St Jude Children s Research Hospital United States virtual talk ATC Flex Lab18 30 19 00Departure to restaurantATC Entrance19 00 22 00Social Activity and DinnerDowntown Day 5 Friday 14 November 2025 Time Europe Berlin SessionLocation08 40Bus from hotel to EMBL ATC EntranceISG Hotel08 55 09 00Overview of the dayATC Flex Lab09 00 10 00Lecture Flow cytometry data analysis and statisticsSteffen Schmitt German Cancer Research Center GermanyATC Flex Lab10 00 10 30Coffee BreakATC Flex Lab10 30 11 30Lecture High dimensional data analysis with FlowJoIoannis Panetas BD Germany Virtual talk ATC Flex Lab11 30 12 30Lecture Publishing your flow cytometry dataMarcus Eich German Cancer Research Center DKFZ GermanyATC Flex Lab12 30 13 30LunchEMBL Canteen13 30 14 00Feedback and goodbyeATC Flex Lab14 00Departure to Heidelberg train stationATC Entrance Practical information Registration fees and motivation letter The course is limited to 16 participants For selection purposes please note that your application will not be considered without a letter of motivation Registration Registration fees include admission course materials meals and coffee breaks Participants are expected to book and pay their own accommodation and travel expenses Academia 715PhD Student 715Industry 1100 A letter to support your visa application will be issued on request once payment of the registration fee is confirmed We recommend that you book your visa appointment as soon as possible to avoid any delay with your visa application Confirmation and payment The registration fee should be paid only after acceptance to the course The results will be announced approximately 2 3 weeks after the application deadline Motivation letter submission After you have logged in and successfully registered you will receive an email asking you to submit your motivation letter Click on the link provided and enter your motivation letter in the text box provided Alternatively you can submit your motivation letter by clicking on the link on the confirmation page directly after registering Instructions Include your relevant skills experience and qualifications showing why you would be suitable for the course Explain why you would like to attend including what you can contribute and how you think you will benefit from the course Please note The limit of 2000 characters refers to manually typed text and excludes spaces If an error occurs try using a different web browser preferably Google Chrome or Mozilla Firefox If you copy paste the text into the form hidden formatting might still be included which may cause the text to exceed the 2 000 character limit resulting in an error message We recommend you clear all formatting before pasting in the text If you have special symbols in your text make sure you are using Unicode characters otherwise these will not be recognised For detailed instructions please watch our video on how to submit a course motivation letter Further details For further information about registration and motivation letter submission please refer to the FAQ page Financial assistance Financial assistance Limited financial assistance is provided by the EMBL Advanced Training Centre Corporate Partnership Programme and EMBO in the form of registration fee waivers travel grants and childcare grants Your place in the meeting is only confirmed by paying the registration fee which is mandatory even when receiving a fee waiver Registration fee waiver The fee waiver will cover the registration sum that you have paid to attend the course Travel grant The travel grant will cover the cost of travel airfare train bus taxi accommodation visa and or registration fees and is provided up to specified caps which are normally as follows up to 400 for participants travelling to an EMBL Course within Europe up to 1000 for participants travelling to an EMBL Course from outside Europe up to 500 for any participant travelling to an EMBO Practical Course up to 1000 for any participant working in Chile India Singapore or Taiwan travelling to an EMBO Practical Course Registration fees are only covered for EMBO Practical Courses The organisers may reduce the grant cap to accommodate more participants Recipients will be notified of their travel cap amount when they are informed of the outcome of their application Original receipts must be provided with your signature for all costs incurred within two months of completion of travel Scanned copies cannot be accepted Childcare grants There is the possibility to apply for a childcare grant to offset child care costs incurred by participants speakers trainers and organisers when attending a course Eligible costs include but are not limited to fees for a babysitter or child care facility and travel costs for a caregiver Please note that priority will be given to early stage researchers There is a limited amount of funding available for the childcare grants and funds will be distributed amongst eligible applicants Boehringer Ingelheim Fonds travel grant Applies to selected courses only Availability will be indicated during the abstract or motivation letter submission process This grant covers costs related to your attendance to the course registration travel and accommodation costs The grant is restricted to PhD students and postdocs who conduct basic biomedical research Whether you are eligible to apply for a travel grant depends on when you received your university entrance qualification e g Abitur A Levels High School Diploma Final State Examination for PhD and MD students as well as graduates the university entrance qualification must not have been obtained more than 11 years ago at the time of the envisaged course for postdocs the university entrance qualification must not have been obtained more than 13 years ago at the time of the envisaged course Application If you are attending virtually you can apply for financial assistance in the submission portal by the abstract deadline Read the instructions on how to apply for financial assistance Only submissions for financial assistance will be accepted Presentation abstracts cannot be submitted here and will be declined In your application you will be asked to summarise your current work answer questions regarding why your lab cannot fund your attendance and how your attendance will make a difference to your career Application for financial support will not affect the outcome of your registration application For some events applications for Childcare Grants will still be done by email Information about the grant will be sent out shortly after the abstract motivation letter deadline Please contact the event Conference Officer if you have any questions Selection The scientific organisers will select the recipients of registration fee waivers during the participant selection process for courses Results will be announced approximately 6 8 weeks before the event start date however for some events this may be delayed Selection results do not impact your admission to the meeting Selection for registration fee waivers and travel grants is based on scientific merit your current work or study location the reasons for needing financial support and the impact this event will have on your career Childcare grants will be allocated in the same timeframe 6 8 weeks before the event start date Please note that priority will be given to early stage researchers Further details Check out this list of external funding opportunities For further information about financial assistance please refer to the FAQ page Accommodation and travel Hotel Accommodation is not included in the registration fee Participants are expected to book and pay for their own accommodation Single rooms have been reserved for 5 nights from Sunday 9 November to Friday 14 November at the ISG Hotel Single rooms are limited and will be available on a first come first served basis After the selection process selected participants should contact the hotel directly to make a booking with a booking code code of your course CYT25 01 by the deadline of Thursday 9 October 2025 We recommend that all course participants stay at the dedicated hotel for the course Travel information For travel information please see here EMBL Events collaborates with Deutsche Bahn to offer discounted train travel within Germany To take advantage of this offer please contact us at events embl de and we will share the discount link with you Please note that you may need to provide proof of your event attendance when purchasing the ticket and or during your travel Local transport Shuttle buses will go from the ISG Hotel to EMBL and back mornings and evenings A bus schedule and location of the bus stops will be made available prior to the meeting Further details Address EMBL Heidelberg Meyerhofstra e 1 69117 Heidelberg Germany For more information about accommodation and travel please refer to the FAQ page On site information Catering All meals and coffee breaks are included in the registration fee Our catering staff will prepare a wide variety of vegetarian meals meat and fish dishes soups pasta fresh fruit and vegetables as well as a variety of desserts Please wear your badge at all times when serving yourself No food or drinks are allowed in the laboratories Electricity and charging station In most places the electricity is 220 volts AC 50 cycles An adaptor and a plug that fits the German socket may be needed for your appliances laptop i e American Japanese etc A USB charging station for electronic devices is available at the registration desk EMBL Merchandise If you are interested in purchasing EMBL merchandise products presented in the glass display in the registration area please email the EMBL shop to place an order or get in contact with your Course Organiser Kindly note the EMBL shop is only open upon request and all purchases must be made in cash Euros only Health and safety notes Please read EMBL s COVID 19 safety policy for on site events Do not smoke in any EMBL building Eating and drinking is prohibited in all laboratories Do not enter any restricted areas or the laboratories unless instructed to do so If first aid is required The first aid room is located next to the ATC Registration Desk room 10 205 Dial the Emergency number 222 from any EMBL internal phone only Where is the accident What happened How many injured Emergency number 06221 387 7821 from mobile phones Please report all accidents to the conference officer at the registration desk In case of fire Press the nearest fire alarm button or the Emergency number 222 from any internal phone A loud fire alarm will go off if an evacuation is required On hearing the alarm leave the building immediately following the escape route and fire wardens and head to one of the meeting points Do not use the lifts Beyond first aid Please remember to bring your own medication if needed to the conference Note that the next pharmacy is a 4 minute drive from the EMBL but for many medications you will be required to see a doctor to get a prescription Ensure in advance that your medical insurance will cover you during your visit in the event that you do need to see a doctor while in Heidelberg In any case the EMBL Course and Conference Office will assist you to get to the pharmacy and a doctor of your choice if necessary Internet Wi Fi is available on campus Log in using the EMBL Events network and the event specific password which will be provided on site The eduroam network secure worldwide roaming access service developed for the international research and education community is also available Lost and found Lost and Found items are kept at the registration desk until the end of the conference Luggage There are lockers available on site to store your luggage which require a 2 EURO coin to operate There is another luggage room on level E0 which is free to use but remains unlocked during the conference Nursing room There is a nursing room available in the ATC Rooftop Lounge on level A29 Photography During the conference an EMBL Photographer may be taking photos If you would not like to appear in these please inform the photographer or a member of the Course and Conference Office Printing We can help to print your boarding pass train ticket Please send it to events embl de and collect your print outs at the registration desk Room for prayer yoga and meditation There is a room for prayer meditation and yoga located on level E0 behind the Auditorium Please be respectful of others using the room Sightseeing A variety of activities in Heidelberg can be found on the website of Heidelberg Marketing Travel to and from the venue During the event we provide conference shuttle buses to and from EMBL In addition there is the public bus 39A that serves the EMBL campus and taxis can be easily booked at any time Information on the shuttle buses can be found on the individual event website and more detailed information on travelling to EMBL can be found on our Travel Information page Map to walk from ISG Hotel to EMBL Technical requirements and event software Additional software The EMBL eCampus learning platform will be used to collaborate communicate and network with all of the course participants All participants will receive information on how to join shortly before 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OverviewSpeakers and trainersProgrammePractical informationSponsorsMedia kit Overview Course overview Flow cytometry is a highly effective method for analysing individual cells that has become widely used in the fields of life sciences and medicine. By utilising flow cytometry, researchers can accurately identify and measure specific cell populations within complex mixtures, as well as assess cell cycle progression, proliferation status, and expression of fluorescent markers. Our course aims to provide a comprehensive understanding of the underlying principles of flow cytometry, while also emphasising practical considerations related to the most frequently used assays. Through a combination of theoretical instruction and hands-on training, students will gain the knowledge and skills necessary to effectively design, execute, and interpret flow cytometry experiments. Audience The course is...
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