Software and Tools

Introduction

The best MR methods are essential for meaningful translational and clinical research. Reliable and stream-lined processing software is necessary for efficient experiment planning and data monitoring during experimental sessions. Finally, robust tools for the analysis of the obtained data are required, e.g. for the quantification of neurochemicals from an in vivo MR spectrum.

Ultra-high 7 Tesla field allows novel insights into the human brain at spatial and spectral resolution that has not been possible before. However, non-standard MR sequences, processing software and analysis tools are necessary. More importantly, true benefits are only achieved if the methodological and technical challenges (e.g. in B0 or B1 behavior) associated to high field can be overcome.

Goals

Our goal is to establish a coherent framework of MR sequences, processing software and analysis tools for clinical MR research of the human brain at 7 Tesla.

Juchem lab software and toolsCurrent Research

Over the last 5 years we established state-of-the-art experimental and computational infrastructure for clinical MR investigations of the human brain at 7 Tesla. MR sequences for MRI, MRS and MRSI were implemented that support multi-transmit and –receive RF technology. Several software packages were written to provide basic functionalities such as MRI and MRS processing of multi-receiver data or brain co-registration for automated MRS voxel (re)positioning. Based on this foundation, specific applications e.g. dynamic multi-coil technique (DYNAMITE) B0 shimming or fully automated B1shimming procedures of all individual MR sequence components (MRS voxel, water suppression, outer-volume suppression) have been added. Experiment time in patients is extremely valuable and, therefore, all methods for experiment planning, calibration processing and data monitoring during sessions are stream-lined for efficiency and reproducibility.

The established MR infrastructure allows neurochemical profiling of neurological disorders and clinical conditions in the human brain in a clinical time frame. We recently demonstrated the quantification of three key players of the pathobiochemistry of multiple sclerosis in a 1-hour session (Prinsen et al, JMRI, 2017). As such, the established methods push the door wide open for translational and clinical MR research in the human brain.

Please click here for the full list of downloadable Software and Tools offered by the MR SCIENCE Laboratory. 

Latest News

MR SCIENCE Laboratory ISMRM 2020 Abstract Awarded Third Place Among Trainee Posters in MR Spectroscopy

International Society for Magnetic Resonance in Medicine Annual Meeting 2020 abstract “Hunting the perfect spline: Baseline handling for accurate macromolecule estimation and metabolite quantification by in vivo 1H MRS" has been awarded third place among all trainee posters in spectroscopy based on MR Spectroscopy Study Group committee nomination and a power pitch given by first author Kelley Swanberg put to member vote. Abstract co-authors include postdoctoral fellows Karl Landheer and Martin Gajdošík and alum Michael Treacy. The abstract submission can be viewed here.