Jörg Bantin
Bio-Rad
Germany
EMBL Course
Please see EMBL’s COVID-19 safety policy for testing and other requirements to attend this on-site course.
There is an increasing interest and need to analyse biomarkers in liquid biopsies, including basic research and clinical applications. Liquid biopsies have several advantages including being minimally invasive, allowing repeated sampling and sampling is often clinical routine.
This course will provide an overview of the several techniques to detect and analyse liquid biopsy-based analytes such as circulating tumour cells, cell-free tumor-DNA (ctDNA), miRNA, extracellular vesicles, mRNA, carbohydrates and proteins. Participants will be introduced to all aspects ranging from proper sampling through analyte analysis and final data analysis. Experimentally, we will demonstrate ultrasensitive ctDNA analysis using sequencing and digital PCR. In addition, targeted miRNA profiling and flow cytometry with single-cell analysis will be highlighted. We will cover aspects of other analytes by lectures and we will have a strong focus on applications, especially cancer applications. Aspects of biobanking and clinical implementation will also be highlighted
This course targets scientists entering the field of liquid biopsy analysis and wanting to learn about the benefits and limitations of different approaches.
Participants will receive an overview of various experimental workflows in liquid biopsies, from sample preparation to data analysis. The course provides an overview of current theories, methods and emerging applications. Whereby a strong focus will be on experimental design, best practices, pitfalls as well as dos and don’ts. After the course, participants should be able to assess the best methods for their application as well as design their experiment.
“This was a great course that has helped me understand the basics, as well as gain in-depth knowledge on liquid biopsies. Simply phenomenal.” – M A Bari Siddiqui, All India Institute of Medical Sciences
Bio-Rad
Germany
Skåne University Hospital
Sweden
EMBL Heidelberg
Germany
Boston University School of Medicine
USA
Ghent University
Belgium
University Hospital Mannheim
Germany
Institute of Biotechnology of the Czech Academy of Sciences
Czech Republic
Uppsala University
Sweden
Sahlgrenska Academy at University of Gothenburg
Sweden
Sahlgrenska University Hospital
Sweden
EMBL Heidelberg
Germany
University of Turku
Finland
Technical University of Munich
Germany
EMBL Heidelberg
Germany
Bio-Rad
Germany
University of Gothenburg
Sweden
University of Gothenburg
Sweden
EMBL Heidelberg
Germany
Course and Conference Officer
EMBL Heidelberg
Germany
Training Lab Technician
EMBL Heidelberg
Germany
Got something to say? Tweet it! #EMBLLiquidBiopsies
Time (Europe/Berlin) | Programme | Location |
---|---|---|
08:40 – 09:00 | Bus from hotel to EMBL ATC Entrance | Bus stop in front of ISG Hotel |
08:45 – 09:00 | Registration | Flex Lab A & B |
09:00 – 09:30 | Welcome and house notes and course overview | Flex Lab A & B |
09:30 – 10:30 | Background/SimSen-protocol lecture Anders Ståhlberg – Sahlgrenska Academy at University of Gothenburg, Sweden Karin Sundfeldt – University of Gothenburg, Sweden | Flex Lab A & B |
Flexible Coffee Break | In front of Training Lab Area | |
10:30 – 12:00 | Practical session 1: DNA extraction Manuel Marceliano Luna Santa-María – Sahlgrenska Academy at University of Gothenburg, Sweden Hilal Ozgur – EMBL Heidelberg, Germany Jessica Sutter – EMBL Heidelberg, Germany | Training Lab B |
12:00 – 13:00 | Lunch | EMBL Canteen |
13:00 – 14:30 | Practical session 2: SiMSen-Seq – library preparation Manuel Marceliano Luna Santa-María – Sahlgrenska Academy at University of Gothenburg, Sweden Hilal Ozgur – EMBL Heidelberg, Germany Jessica Sutter – EMBL Heidelberg, Germany | Training Lab B |
14:30 – 15:00 | Coffee break | In front of Training Lab Area |
15:00 – 16:30 | Ice breaker & Flash talks | Flex Lab A & B |
16:30 – 17:00 | Q&A session to pre-recorded lectures Anders Ståhlberg – Sahlgrenska Academy at University of Gothenburg, Sweden | Flex Lab A & B |
17:00 – 18:30 | Practical session 3: SiMSen-Seq Clean-Up and quality control Manuel Marceliano Luna Santa-María – Sahlgrenska Academy at University of Gothenburg, Sweden Hilal Ozgur – EMBL Heidelberg, Germany Jessica Sutter – EMBL Heidelberg, Germany | Training Lab B |
18:30 – 20:30 | Pizza and Poster Session 1 | ATC Helix B |
20:30 | Departure to Hotel | ATC Entrance |
Time (Europe/Berlin) | Programme | Location |
---|---|---|
08:40 – 09:00 | Bus from hotel to EMBL ATC Entrance | Bus stop in front of ISG Hotel |
09:00 – 09:05 | Overview of the day | Flex Lab A & B |
09:05 – 10:00 | Lecture: Single Cell Sorting Beata Ramasz – EMBL Heidelberg, Germany | FACS Facility / GeneCore Facility |
Flexible Coffee Break | In front of Training Lab Area | |
10:00 – 12:00 | Practical session 4: Single Cell Sorting Beata Ramasz – EMBL Heidelberg, Germany Daniel Gimenes – EMBL Heidelberg, Germany / GeneCore tour | FACS Facility / GeneCore Facility |
12:00 – 12:30 | Practical session 5: SiMSen-Seq QC Library pooling Anders Ståhlberg – Sahlgrenska Academy at University of Gothenburg, Sweden Hilal Ozgur – EMBL Heidelberg, Germany Jessica Sutter – EMBL Heidelberg, Germany | Training lab B |
12:30 – 13:30 | Lunch | Canteen |
13:30 – 14:30 | Lecture: Exosomal Biomarkers in Liquid Biopsies: How to identify valid and better ‘Biomarker Signatures’ from micro-vesicular small-RNA Sequencing Michael Pfaffl – Technical University of Munich, Germany | Flex Lab A & B |
14:30 – 15:00 | Practical session 6: Single-cell RT Manuel Marceliano Luna Santa-María – Sahlgrenska Academy at University of Gothenburg, Sweden Hilal Ozgur – EMBL Heidelberg, Germany Jessica Sutter – EMBL Heidelberg, Germany | Training lab B |
15:00 – 16:00 | Lecture: Introduction to ddPCR Jörg Bantin – Bio-Rad, Germany | Flex Lab A & B |
16:00 – 16:30 | Practical session 7: Single-cell qPCR Manuel Marceliano Luna Santa-María – Sahlgrenska Academy at University of Gothenburg, Sweden Hilal Ozgur – EMBL Heidelberg, Germany Jessica Sutter – EMBL Heidelberg, Germany | Training lab B |
16:30 – 16:45 | Coffee break | In front of Training Lab Area |
16:45 – 18:30 | Practical session 8: ddPCR Jörg Bantin – BioRad, Germany Pia Scheu – Bio-Rad, Germany | Training lab B |
18:30 – 19:30 | Practical session 9: PCR setup, droplet generation and cycling Start reading the experiment Jörg Bantin – BioRad, Germany Pia Scheu – Bio-Rad, Germany | Training lab B |
19:30 – 21:30 | Poster session 2 – tapas | ATC Helix B |
21:30 | Departure to Hotel | ATC Entrance |
Time (Europe/Berlin) | Programme | Location |
---|---|---|
08:40 – 09:00 | Bus from hotel to EMBL ATC Entrance | Bus stop in front of ISG Hotel |
09:00 – 09:15 | Overview of the day | Flex Lab A & B |
09:15 – 11:15 | Practical session 10: Data analysis with QX Manager Jörg Bantin – BioRad, Germany Pia Scheu – Bio-Rad, Germany | Flex Lab A & B |
11:15 – 11:30 | Coffee break | In front of Training Lab Area |
11:30 – 12:30 | Lecture: Role of biobanks in securing process quality in sample retrieval and storage Romy Kirsten – University Hospital Mannheim, Germany | Flex Lab A & B |
12:30 – 13:30 | Technology lunch | Rooftop Lounge |
13:30 – 14:30 | Lecture: Effect of pre-analytical factors on the measurement of Evs in Liquid Biopsies An Hendrix – Ghent University, Belgium | Flex Lab A & B |
14:30 – 15:30 | Title to be confirmed Nayara Azevedo – Roche, Germany | Flex Lab A & B |
15:30 – 16:00 | Coffee break and Course Picture | In front of Training Lab Area |
16:00 – 17:00 | Lecture: Clinical validation of droplet-based procedures in the context of liquid biopsies Valerie Taly – Paris Descartes University, France | Flex Lab A & B |
17:00 | Free evening | |
17:00 | Departure to Hotel | In front of ATC entrance |
17:30 | Bus to Neckarmünzplatz | Bus stop in front of ISG Hotel |
Time (Europe/Berlin) | Programme | Location |
---|---|---|
08:40 – 09:00 | Bus from hotel to EMBL ATC Entrance | Bus stop in front of ISG Hotel |
09:00 – 09:15 | Overview of the day | Flex Lab A & B |
09:15 – 10:15 | Lecture: Europium nanoparticle based test concept for glycovariants of traditional and novel biomarkers to provide enhanced cancer specificty Kim Pettersson – University of Turku, Finland | Flex Lab A & B |
10:15 – 10:45 | Coffee break | In front of Training Lab Area |
10:45 – 11:45 | Lecture: Protein detection in Liquid Biopsies Ulf Landegren – Uppsala University, Sweden | Flex Lab A & B |
11:45 – 12:45 | Poster group discussion | Flex Lab A & B |
12:45 – 13:45 | Lunch | EMBL Canteen |
13:45 – 14:45 | Lecture: Diagnostic potential of tumor DNA in proximal fluids in gynecologic cancer. Karin Sundfeldt – Sahlgrenska Academy at University of Gothenburg, Sweden | Flex Lab A & B |
14:45 – 16:00 | Lecture two tailed PCR Mikael Kubista – Institute of Biotechnology and TATAA Biocenter, Czech Republic | Computer Training Lab |
16:00 – 16:30 | Coffee break | In front of Training Lab Area |
16:30 – 18:00 | Practical session 11: Single-cell analysis Data analysis and compliance Mikael Kubista – Institute of Biotechnology of the Czech Academy of Sciences, Czech Republic | Computer Training Lab |
18:00 – 18:30 | Departure to Hotel and Downtown | In front of ATC entrance |
18:30 – 19:30 | Free Time in the City Centre | |
19:30 – 22:00 | Course dinner downtown |
Time (Europe/Berlin) | Programme | Location |
---|---|---|
08:40 – 09:00 | Bus from hotel to EMBL ATC Entrance | Bus stop in front of ISG Hotel |
09:00 – 09:15 | Overview of the day | Flex Lab A & B |
09:15 – 10:15 | Lecture: Liquid Biopsies in the clinical context High-fidelity sequencing Tony E. Godfrey – Boston University School of Medicine, USA | Flex Lab A & B |
10:15 – 10:30 | Coffee break | Computer Training Lab |
10:30 – 12:00 | Practical session 12: multivariate analysis Mikael Kubista – Institute of Biotechnology and TATAA Biocenter, Czech Republic | Computer Training Lab |
12:00 – 13:00 | Lunch | EMBL Canteen |
13:00 – 16:00 | Practical session 13: SiMSen-Seq Data analysis Tobias Österlund and Manuel Marceliano Luna Santa-María – Sahlgrenska Academy at University of Gothenburg, Sweden | Computer Training Lab |
16:00 – 16:30 | Coffee Break | Computer Training Lab |
16:30 – 17:30 | Lecture: Implementing liquid biopsies in the clinic – needs, obstacles and possibilities Anders Edsjö – Skåne University Hospital, Sweden | Flex Lab A & B |
17:30 – 18:00 | Course wrap up | Flex Lab A & B |
18:00 | Departure to the Hotel | In front of ATC entrance |
18:30 | Dinner | ISG Hotel |
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 fees include admission, course materials, COVID-19 safety measures, meals and coffee breaks.
Academia | €790 |
PhD Student | €790 |
Industry | €1200 |
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.
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.
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
Please note:
For detailed instructions, please watch our video on how to submit a course motivation letter.
For further information about registration and motivation letter submission please refer to the FAQ page.
Limited financial assistance is provided by the EMBL Advanced Training Centre Corporate Partnership Programme and EMBO in the form of both registration fee waivers and travel grants. Availability is limited to participants attending on-site EMBL Courses and virtual or on-site EMBO Practical Courses in Heidelberg, and will be indicated during the motivation letter submission process.
Your place in the course is only confirmed by paying the registration fee, which is mandatory even when receiving a fee waiver.
The fee waiver will cover the registration sum that you have paid to attend the course.
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.
– up to €700 for any participant working in Croatia, Czech Republic, Estonia, Greece, Hungary, Italy, Lithuania, Luxembourg, Poland, Slovenia, and Turkey 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.
For EMBO Practical Course participants with children, there is the possibility to apply for a childcare grant to offset child care costs incurred by participants or speakers when participating at a course. Eligible costs include fees for a babysitter or child-care facility, travel costs for a caregiver, or travel costs for taking the child to the meeting etc. Please note that priority will be given to early-stage researchers. A maximum amount of €500 can be awarded per participant applying for an EMBO childcare grant.
Applies to selected courses only. Availability will be indicated during the motivation letter submission process.
This grant covers costs related to your attendance at 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
You may apply for financial assistance when submitting your motivation letter for courses. In your application, you will be asked to 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 the Boehringer Ingelheim Fonds Travel Grant, there is a pre-application question during the motivation letter submission process, and if selected you will be requested to complete a standard form and documentation consisting of your travel expense estimation.
The scientific organisers will select the recipients of all financial assistance during the motivation letter selection process. 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 course. Selection 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.
Costs will be reimbursed after the meeting only once a reimbursement form and original receipts (from travel costs) have been received.
See our list of external funding opportunities and for further information about financial assistance please refer to the FAQ page.
Single rooms have been reserved for 5 nights (9 – 14 October 2023) at the ISG Hotel. After the selection process, selected participants should contact the hotel directly to make a booking (booking code LIQ23-01). We recommend that all course participants stay at the ISG Hotel which is the dedicated hotel for the course.
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.
Address: EMBL Heidelberg, Meyerhofstraße 1, 69117 Heidelberg, Germany
For further information on getting to EMBL Heidelberg visit our Travel Information page.
For enquiries about accommodation and local transportation please refer to the FAQ page.
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 the course. We recommend using Chrome, Safari or Mozilla Firefox browsers for eCampus.
Please find additional information including FAQs, terms and conditions, COVID-19 safety policy and travelling to EMBL on our Information for Participants page.
COVID-19 information for on-site events at EMBL Heidelberg can be found in our COVID-19 FAQs.
Course partners
Course sponsors
Sponsorship opportunities
We offer a variety of event sponsoring possibilities, with the flexibility to select a set sponsorship package or combine individual sponsorship options to suit your event budget. Discounts are available for companies sponsoring multiple events at EMBL Heidelberg. View other events, or contact sponsorship@embl.de for further information.
If you are interested in becoming a media partner of this event, please visit our media partnerships webpage.
EMBL wishes to warn sponsors of EMBL conferences and courses of fraudulent schemes purporting to offer sponsorship opportunities on behalf of EMBL or affiliated with EMBL officials. One current scam campaign of which we are aware is conducted using the name ‘Judy Eastman’ (judy@gopcontact.a2hosted.com) and entails approaches to sponsors offering sponsorship opportunities on EMBL’s behalf. Please be kindly advised that all relevant communication regarding sponsorship of EMBL conferences, symposia and courses is handled by EMBL directly and is sent from an official EMBL account. EMBL does not work with any external providers on sponsorship acquisition.
Please also note that:
Suspicious communications purportedly from, for or on behalf of EMBL should be reported to EMBL at the following email address sponsorship@embl.de.
Want to let others know you’re attending this event? Take a look at our shareable media and feel free to use them in your social media channels or presentations.
Date: 9 - 13 Oct 2023
Location: EMBL Heidelberg
Venue: EMBL Advanced Training Centre
Deadline(s):
Application: Closed
Organisers:
Contact: Sophie Dutzi