4.1 Book on preclinical methods and protocols (CLOSED)

This task force is closed  

The book is currently in press with an expected publication date towards the end of 2020.


Book Title

Preclinical MR Imaging of the Kidney: Methods and Protocols for Experiments and Analyses


  • Overall aim:  provide training in state of the art preclinical renal MR experiments and their data analyses
  • Experimental steps are described in detail, but in generic terms
    • examples of specific parameter choices are given in the Notes section (i.e. footnotes)
    • for mouse or rat and 7T or 9.4T
  • Each protocol (technique) is written/reviewed by more than one lab
  • Lead authors are encouraged to find 1 or more coauthors from other labs
  • Chosen publication route:  a dedicated Springer Protocols book

What are Springer Protocols?

  • Methods in Molecular Biology (MIMB) is a critically acclaimed books series, part of the Springer Protocols
  • Exists for 35 years;  >40,000 protocols  in >1,700 books
  • Each protocol chapter is provided in readily-reproducible step-by-step fashion
  • Each chapter is a separate PubMed listed publication, for instance:

Book Concept Description

Acute and chronic kidney diseases (CKD) are a global health burden, with the worldwide death toll of acute kidney injury (AKI) alone being estimated at 2 million per year. Prevention and therapy of AKI and CKD largely rely on empirical knowledge; the prophylactic and therapeutic options are limited. Early and specific detection of renal pathogenesis as well as longitudinal monitoring of its progression are critical for developing and improving renoprotective and therapeutic strategies. Non-invasive renal assessment using Magnetic Resonance Imaging (MRI) biomarkers has a high potential to improve the clinical management of renal diseases.

In recent years renal MRI methodology has rapidly matured and fostered an increase in clinical and preclinical application. Preclinical renal MRI plays two important roles: i) enable the refinement and validation of MRI methods through comparison with (clinically unusable) invasive quantitative measurement methods in more controllable pathophysiological settings, and ii) help to test and evaluate renoprotective and therapeutic strategies in animal models of AKI and CKD.

Today there is a general recognition within the community that for both clinical as well as preclinical renal MRI more international coordination is of paramount importance. This has led to the establishment of the PARENCHIMA initiative “MRI Biomarkers for CKD” (CA16103), an community-driven Action of the European Cooperation in Science and Technology (COST) programme of the European Union, which unites approximately 200 experts in renal MRI from 24 countries. PARENCHIMA recognizes that “the main challenge in the field of renal MRI biomarkers today is to unlock their potential by improving the standardisation and availability of the assays [...]”. Working Group 1 of the PARENCHIMA initiative aims to “improve the reproducibility and standardisation of renal MRI biomarkers”. This book is born and supported by this initiative.

The objectives of this book are to provide comprehensive guidelines and instructions that enable novices as well as experienced scientist/clinicians to understand, perform and analyse preclinical MRI experiments of the kidney. With the proclaimed aim to help the community to move towards a standardisation of renal MRI biomarkers, this book provides expert-reviewed experimental protocols for renal MRI including detailed descriptions of the crucial, but often neglected, data analyses. With the intention of making this a book “from the community for the community”, we make efforts to involve authors from as many different labs in as many countries as possible.

The book is organized into four parts:

PART I – Animal Models and Preparation. A sound understanding of the animal model combined with professional high-class preparation of the animal experiments are vital and are described here.

PART II – MR Imaging Methods. Chapters in this part introduce the concepts of the more complex MRI methods and review their renal application and current state-of-the-art.

PART III – Experimental Protocols. Chapters in this part represent the core of this book, with generic descriptions of experimental steps, complemented by explicit parameter examples for the most common animal species (mice and rats) and hardware setup (7T to 9.4T animal MR system). Data analysis is also described, except for complex techniques for which only an overview is given and the detailed instructions are presented in Part IV.

PART IV – Advanced Analysis Protocols. Descriptions of data analysis for the more complex MR techniques.

We are immensely grateful to the many experts that are supporting this initiative and invest their time and efforts in preparing and reviewing this collection of methods and protocols for preclinical kidney MRI experiments and their analyses. May this be an effective contribution towards improving the reproducibility and standardisation of renal MRI biomarkers.

Table of Contents (preliminary)

Please see here for a preliminary table of contents:  TOC.pdf

Editorial Team

Andrea Fekete (section editor)
SE-MTA Diabetes Research Group
1st Dept. of Pediatrics
Semmelweis University Budapest
Budapest, Hungary

Andreas Pohlmann (volume editor & section editor)
Experimental Ultrahigh-Field Magnetic Resonance
Max Delbrück Center for Molecular Medicine (MDC)
Berlin, Germany

Christoffer Laustsen (section editor)
Department of Clinical Medicine,
MR Research Centre, Aarhus University
Aarhus University Hospital
Aarhus, Denmark

Dario Livio Longo (section editor)
Molecular Biotechnology and Health Science
University of Torino
Torino, Italy

Iris Friedli (section editor)
Hôpitaux Universitaires de Genève
Genève, Switzerland

João dos Santos Periquito (section editor)
Experimental Ultrahigh-Field Magnetic Resonance
Max Delbrück Center for Molecular Medicine (MDC)
Berlin, Germany

Martin Meier (section editor)
ZTL Imaging-Center
Hannover Medical School
Hannover, Germany

Min-Chi Ku (section editor)
Experimental Ultrahigh-Field Magnetic Resonance
Max Delbrück Center for Molecular Medicine (MDC)
Berlin, Germany

Neil Jerome (section editor)
Institutt for sirkulasjon og bildediagnostikk
Norges Teknisk-Naturvitenskapelige Universitet
Trondheim, Norway

Thoralf Niendorf (volume editor)
Experimental Ultrahigh-Field Magnetic Resonance
Max Delbrück Center for Molecular Medicine (MDC)
and Experimental and Clinical Research Center
Charité Medical Faculty
and German Centre for Cardiovascular Research
Berlin, Germany


Lead: Dr. Andreas Pohlmann