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The Crossroad for micro-CT Users

Dear Colleagues,

Year after year, the micro-CT Users Meeting showcases state-of-the-art applications in both life and material sciences, and provides the latest news about SkyScan systems and software. On top it offers the perfect chance to speak directly with our experts, and unparalleled networking opportunities.

We are happy to invite you again to our Bruker micro-CT Users Meeting 2019. This year we have streamlined the program to give all of you the chance to join us despite your busy schedule, yet maintaining the high standards. The Bruker micro-CT Users Meeting 2019 will be hosted in the ‘Lamot Congress Centre’ in Mechelen on June 5. Connected to this is the unique opportunity to attend a full-day training course on June 4.

We look forward to meeting you there!
Your Bruker Team

Key Facts

Early bird Late registration
Training + micro-CT Users Meeting (1) 350€ 450€
micro-CT Users Meeting (2) 200€ 300€

Register Now

(1) Includes the training course on June 4 with coffee break and a warm lunch, the opening reception on June 4, the micro-CT Users Meeting on June 5 with coffee break and sandwich lunch, and the social event and conference dinner on June 5.

(2) Includes the opening reception on June 4, the micro-CT Users Meeting on June 5 with coffee break and sandwich lunch, and the social event and conference dinner on June 5.

Note: The registration is free of charge for the selected attendees with an oral presentation.

Important Deadlines

Paper submission 01 March 2019
Paper approval and program publication 18 March 2019
Closing early bird registration 05 April 2019
Movie submission for movie contest 03 May 2019
Closing late bird registration 17 May 2019

Program at a glance

Date Day Program Evening
June 4, 2019 Training course @ Lamot Opening reception
June 5, 2019 micro-CT Users Meeting @ Lamot Social event & dinner

Detailed Agenda

This year we will have the chance to accommodate 16 speakers in total, which will be selected based on the submitted papers (more details below). As usual there will be a nice mix of applications, both life and material science

The final program and speakers will be communicated on March 18, 2019.

Wednesday 5 june 2019
08:30-08:50 Registration and coffee/tea
08:50-09:00 Welcome
09:00-09:30 Yannick Schwab, European Molecular Biology Laboratory, Germany
“Fast and precise targeting of single tumor cells in vivo by multimodal correlative microscopy”
9:30-09:50 David Haberthür, University of Bern, Switzerland
“Adaptation Mechanisms of Zebrafish Respiratory Organ to Endurance Training”
09:50-10:10 Brandon Pratt, California State University, USA
“Using microCT to understand how plants resist drought”
10:10-10:30 Vladimir Mendoza-Lavaniegos, CICESE, Mexico
“Early use of micro-XCT to unravel morphologic features related to a parasite-carrier Mexican bedbug responsible for Chagas disease”
10:30-11:00 COFFEE/TEA break + POSTER SESSION
11:00-11:30 Steffen Berg, Shell, Netherlands
“Insights into the physics of multiphase flow in porous media from fast µCT”
11:30-11:50 Stephen Parsons, University of Kentucky, USA
“Revealing “Invisible” Signals in CT with Machine Learning”
11:50-12:10 Sylvie Chevallier, Oniris, France
“Micro-CT to evaluate microwave assisted freezing of potato cylinders”
12:10-12:30 Daniela Mele, Bari University, Italy
“X-ray microtomography as a quantitative tool for the study of the influence of internal structures on the shape of pyroclastic particles”
12:30 – 13:30 LUNCH
13:30-14:00 Hanna Napieczynska, Max Delbrück Center, Germany
“Characterization of a rat model of hypertension with brachydactyly E using µCT ”
14:00-14:20 Richard Walton, University of Bordeaux, France
“Advancing towards pre-clinical microCT imaging of cardiac tissue”
14:20-14:40 Willi Wagner, University of Heidelberg, Germany
“Free propagation phase contrast in classical microCT improves image quality especially in weakly absorbing specimens”
14:40-15:00 Lingwei Huang, University of Eastern Finland, Finland
“Quantification of Calcified Cartilage Thickness in 3D from Rabbit Knees using Micro-computed Tomography”
15:00-15:30 COFFEE/TEA break + POSTER SESSION
15:30-15:50 Anabela Bensimon-Brito, Max-Planck-Institute, Germany
"Unveiling Cardiovascular Defects in Adult Zebrafish"
15:50-16:10 Frantisek Spoutil, Czech Centre for Phenogenomics, Czech Republic
“Face 2 Face: Automatic Mouse Skull Phenotyping”
16:10-16:30 Gerard van Dalen, Unilever, Netherlands
“3D imaging and analysis of fibrous filter sheets using X-ray microtomography and image analysis.”
16:30-16:50 Daniel Chappard, Université d’Angers, France
“Necrosis of the femoral head, X-ray microtomography aspects (microCT) and histology of retrieved human femoral heads”
16:50-17:10 Andreas Griesser, Math2Market, Germany
“FiberFind: Machine learning-based segmentation and identification of individual fibers in μCT images of fibrous media”
17:10-17:15 Wrap-up and end of User Meeting
18:30 Bruker microCT social event
Announcement winner of poster and movie awards

Training Course

Training will start at 10am and finish at 4:30pm in 'Lamot Congress Centre'.After the training we welcome everyone at the opening reception starting at 7pm in the 'Lamot Congress Centre'.

You will have the choice to register for one of the 3 proposed training courses:

Training session 1

  • You can take most benefit from this session when you are new to the SkyScan software suite and want to learn more about the essentials of micro-CT.
  • Topics covered:

    • Setting up a good scan
    • Reconstructing your images without artefacts
    • View your results in 2D and 3D
    • Learning the essentials of image analysis

Training session 2

  • You can take most benefit from this session when you already feel confident doing a good scan and reconstruction but sometimes bump into certain issues and want to learn more about data visualization and analysis.
  • Topics covered:

    • Selecting regions of interest
    • Segmentation algorithms to binarize your data
    • Morphometric analysis in custom processing
    • Task automation in custom processing and BatMan
    • 3D multivolume data representation in CTVox 

Training session 3

  • You can take most benefit from this session when micro-CT imaging has no secrets anymore for you, custom processing became a true hobby, and you’re out to know all latest and greatest features in our software.
  • Topics covered:

    • Special scanning trajectories
    • Advanced artefact correction techniques
    • Density calibration
    • Fully automating your image analysis with automated ROI selection & image filtering techniques,3D multivolume data representation in CTVox

Travel and Accomodation

Date: Tuesday, June 4th and Wednesday, June 5th
Time: 8:30 am – 5:30 pm
Venue: Lamot Congress Centre Haverwerf, 2800 Mechelen, Belgium

For questions please contact us at

The venue for the training and user meeting is the Lamot Congress Centre, located in the centre of Mechelen (Haverwerf), Belgium. More info can be found at

Travel arrangements and hotel accommodation are at responsibility and cost of the attendees.

Recommended hotels
Several options are available at walking distance from the Lamot Congress Centre:

Abstract Submission

Paper submission & approval
A paper is an extended abstract of minimum 2-pages including at least some pictures, tables and results, or what you think is necessary to make your work clearer to understand by a general micro-CT user.

Papers will be accepted as a Word-document by email to before 01 March 2019 by downloading the template. You can indicate your preference for a poster or an oral presentation on the submission form. After reviewing, we will publish the final program on 18 March 2019, which will indicate which papers are selected for an oral presentation, and which ones for a poster presentation. By submitting an abstract, you agree that after the meeting, your abstract can be used for Marketing and Sales purpose and published on the Bruker website, without mentioning your personal coordinates (email, phone number) on any media.

Please note when preparing the paper and your presentation (oral or poster), the micro-CT Users Meeting has an audience with different backgrounds and interests. Keep your presentation general and don't assume that your standard abbreviations will be understood by everyone. It would be interesting to explain your research so that a general audience would understand it. The focus should be on what you do with the micro-CT and the images.

Oral presentation
The timeslot for an oral presentation is 20 minutes: 15 minutes for the talk and 5 minutes for questions. Slides for the oral presentation should be prepared in PowerPoint format, and saved on the meeting laptop, which is a Windows 7 computer, well before the session starts. The use of your own computer is not recommended but is possible when tested during the breaks.

Poster presentation
Posters should be formatted to A0 portrait. The posters will be open for discussion during the coffee and lunch breaks during the users meeting on 5 June 2019. During poster viewing you are expected to be at your poster to maximize the discussion with other users. An award will be elected for the best poster presentation.

Poster & Movie Contest

This year we will have a contest for the best poster and movie.

When your paper is selected for a poster presentation, you will automatically enter the best poster contest. For the movie contest a movie of maximum 30sec made using CTVol or CTVox can be submitted to before May 3. If the file is too big to send through mail you can use e.g. You are welcome to submit multiple movies; however, they will count as individual entries for the contest.

All attendees have one vote and the winners will be announced on Wednesday June 5 during the social event. The prize for best poster is an Apple iWatch, the prize for the best movie is a GoPro camera.