Phenotyping training courses

First-line phenotyping courses

A training course format that will be offered by the INFRAFRONTIER-I3 partners Helmholtz Zentrum München operating the German Mouse Clinic (GMC) and by the CERBM-GIE operating the ICS Mouse Clinical Institute is focussing on state-of-the-art phenotyping technologies. This is a unique opportunity for the community to benefit from the outstanding expertise available in the mouse clinics on both high-throughput and specialised secondary phenotyping technologies. Both, GMC and ICS offer one course each covering the entire first-line phenotyping and also selected secondary phenotyping modules. The courses are open to the whole scientific community with a specific interest in mouse phenotyping and will target both scientists and technicians. The courses will cover a theoretical part and in depth practical sessions delivered by experienced scientists working in the mouse clinics. Animal welfare aspects will be an important component of the course program. Specific needs and interests of the participants will be surveyed ahead of the courses and taken into account in designing the final course agenda.

Primary phenotyping of mouse embryos, 23-25 November 2016, Strasbourg, France
  • Training Course in English
  • Training course for engineers and researchers
  • This training is aimed at providing a theoretical and practical background knowledge destined for researchers and engineers that are willing to acquire primary expertise in mouse development.
  • The topics will cover dissection of post implant embryos, histology, whole mount Lac Z staining and confocal imaging of whole embryos.
  • Learn good practices (3 workshops)

Further information

Mouse models: approaches and phenotyping, 14-17 March 2017, Strasbourg, France
  • Understand the interest of phenotyping to characterize gene function in mouse model for diseases
  • Learn about the scientific and ethical considerations in phenotyping
  • Hear about the current web resources available
  • Learn good practices by experimentation (5 workshops)

Further information

2nd European Advanced School for Mouse Phenogenomics, 12-16 June 2017, Goersdorf, France

Would you like to learn how to choose, create and analyse your best mouse model? Do you have a sufficient background in mouse functional genomics to lead as best your research?
This international training of excellence provides engineers, PhDs and researchers with an innovative program focused on best practices in the use of the mouse model biomedical and scientific research. Reach us and you will gain crucial skills required to use as best mutant mice and support you in your research!
Registration open! Early bird dead line : March 31st

Further information

Specialised secondary phenotyping courses

The INFRAFRONTIER-I3 first line phenotyping training courses will be complemented with courses of the INFRAFRONTIER partner Universitat Autonoma de Barcelona (UAB).

UAB specialised secondary phenotyping courses

UAB offers the following course formats:

  • Course on mouse osteology: basis for X-ray and CT bone phenotyping
  • Course on mouse blood and lymphatic vessel phenotyping

UAB training course on mouse blood and lymphatic vessel phenotyping

The training course on mouse osteology was held at the UAB on 20 - 22 November 2013 in Barcelona. The UAB course on mouse blood and lymphatic vessel phenotyping is now open for registrations and will be held at the UAB on 17 - 20 November 2014.

Objective of the course

The aim of this Infrafrontier Training Course is capacitating participants to localize and to interpret the most common vascular morphological abnormalities found in mutant mice. This will occur in the context of dedicated learning sessions devoted to the study of blood and lymphatic vessels anatomy, and the methodologies (Dissection, Vascular injection, Corrosion, Transparentation, CT, MRI, Transmission and Scanning Electron Microscopy, Immunohistochemistry, etc.) used to visualize the mouse circulatory system. Lectures will be followed by practical sessions in which participants will demonstrate and analyze mouse vessels with different technologies. In addition to the theoretical and practical sessions, the course will include seminars where specific vascular abnormalities found in mutant mice will be discussed.

Course coordinator

Jesús Ruberte, Professor of Veterinary Anatomy. Head of the Mouse Imaging Platform and Morphological Analysis Unit, CBATEG, UAB

Registration dead line

15 October 2014

Participation Fees

The organization will cover coffee breaks, lunches (on 17, 18, 19 and 20 November 2014) and the dinner on 19 November 2014 for all participants. 
Registration fees: 1200 €

Maximum number of participants: 10

For inscription contact:

Course flyer and provisional program

INFRAFRONTIER-I3 / Mouse Metabolic Phenotyping Training Course, October 10th – October 13th at the German Mouse Clinic, Helmholtz Centre Munich

INFRAFRONTIER, the European Research Infrastructure for phenotyping and archiving of model mammalian genomes, offers an excellent training opportunity in mouse metabolic phenotyping. The course will be run by the German Mouse Clinic (GMC) based at the Helmholtz Centre Munich (, and will cover state of the art phenotyping assays used in the energy metabolism, diabetes, clinical chemistry and pathology screens of the GMC. All assays are routinely applied in systemic phenotyping projects of the GMC, and in part also in the phenotyping pipeline of the International Mouse Phenotyping Consortium (IMPC). The course will be run by highly experienced scientists of the GMC, and involve presentations and extensive discussions of assays, experimental design and data analyses.


Course content

Day 1 / October 10th / starting at 12.00

  • German Mouse Clinic phenotyping pipelines, INFRAFRONTIER
  • Glucose metabolism, glucose tolerance test
  • Clamp technologies

Day 2 / October 11th

  • Metabolic phenotyping
  • Clinical chemistry / liver enzymes
  • Pathology and histological analyses
  • Tour of German Mouse Clinic

Day 3 / October 12th

  • Phenotyping pipeline design
  • Data analysis, statistics
  • Liver spectroscopy, Maldi mass spectrometry
  • Breath gas analysis
  • Metabolomics
  • Tour of Helmholtz Genome Analysis Centre (GAC)

Day 4 / October 13th / ending at 17.00

  • Pigs as animal models for metabolic research
  • Indirect calorimetry
  • Human respirometry


Learning objectives

  • The 4-day course is intending to give participants a comprehensive overview of state of the art technologies and approaches in mouse metabolic phenotyping
  • A strong focus will be on experimental design and phenotyping data analyses


Prospective attendees

  • Course level will be at MS, PhD and Postdoc level. No prior experience with metabolic phenotyping required



  • The training course is limited to a total of 10 participants
  • Cost: 500€ covering course materials, accommodation, coffee breaks, lunch and course dinner (but excluding travel cost)
  • Accommodation for course participants has been arranged in the Kurfürst Hotel close to the meeting venue,
  • Registration: Please submit the registration form with contact details and a short description of your current research interests related to mouse metabolic phenotyping and your training needs
  • Registration deadline: September 16th, 2016
  • Contact for further enquiries and submission of applications:


Course instructors

  • Dr Helmut Fuchs (GMC, Helmholtz Zentrum München)
  • Dr Valerie Gailus-Durner (GMC, Helmholtz Zentrum München)
  • Dr Birgit Rathkolb (GMC, Helmholtz Zentrum München)
  • Dr Julia Calzada-Wack (GMC, Helmholtz Zentrum München)
  • Dr Patricia da Silva-Buttkus (GMC, Helmholtz Zentrum München)
  • Dr Jan Rozman (GMC, Helmholtz Zentrum München)
  • Dr Holger Maier (GMC, Helmholtz Zentrum München)
  • Martin Kistler (GMC, Helmholtz Zentrum München)
  • Mark Haid (GMC, Helmholtz Zentrum München)
  • Dr Axel Walch (Helmholtz Zentrum München)
  • Dr Michael Hagn (INFRAFRONTIER)
  • Dr Simone Renner (Ludwig Maximilian University, Munich)
  • Dr Harm Knot (TSE Systems GmbH)
  • Dr Luciana Caminha-Afonso


Course organisation

  • Dr Kristin Moreth, Dr Michael Hagn (Helmholtz Zentrum München)




 The INFRAFRONTIER metabolic phenotyping training course is financially supported by the EC FP7 funded INFRAFRONTIER-I3 project, project No: 312325


Metabolism from cells to mouse, April 25th – 26th 2017
at the CCP in BIOCEV, Vestec/Prague, Czech Republic

This unique workshop provides the introduction and practical hands-on of integrated metabolomics workflows, employing the techniques of cellular energy metabolism (Agilent Seahorse XF), detailed metabolomic analysis by LC/MS Q-TOF and the translation of cell culture results into a living mouse model using indirect calorimetry. Results from integrated experimental model, employing all the three techniques will be presented.


  • Introduction into experimental workflow design
  • Assay of cellular metabolism in real-time
  • Mass spectrometry metabolomics
  • Indirect calorimetry technique

Practical hands-on in groups:

  • Agilent Seahorse XFp
  • Agilent LC/MS Q-TOF
  • Indirect Calorimetry

Place: Czech Centre for Phenogenomics, Vestec/Prague, Czech Republic
Application deadline: 20 April 2017
Participants: A maximum of 30 participants
Course fee: 50 € (includes: coffeebreaks, lunches, social dinner, reagents & consumables for hands-on session, participant bag)

Course program

Further information and registration