INtegrating Magnetic Resonance SPectroscopy and Multimodal Imaging for Research and Education in MEDicine

Deliverables

Communication plan
INSPiRE-MED website
Final exploitation strategy

Outreach report: summary of ESRs public engagement activities

Outreach report summary of ESRs public engagement activities

Final report on training programme implementation

Publications

Quantification of MR spectra by deep learning in an idealized setting: Investigation of forms of input, network architectures, optimization by ensembles of networks, and training bias

Author(s): Rizzo R, Dziadosz M, Kyathanahally SP, Shamaei A, Kreis R
Published in: Magnetic Resonance in Medecine, Issue Volume89, Issue5, 2022, ISSN 0740-3194
Publisher: John Wiley & Sons Inc.
DOI: 10.1002/mrm.29561

icobrain ms 5.1: Combining unsupervised and supervised approaches for improving the detection of multiple sclerosis lesions

Author(s): Rakić M, Vercruyssen S, Van Eyndhoven S, de la Rosa E, Jain S, Van Huffel S, Maes F, Smeets D, Sima DM
Published in: NeuroImage: Clinical, Issue 31, 2021, Page(s) 102707, ISSN 2213-1582
Publisher: Elsevier BV
DOI: 10.1016/j.nicl.2021.102707

Multi-echo single-shot spectroscopy combined with simultaneous 2D model fitting for fast and accurate measurement of metabolite-specific concentrations and T2 relaxation times

Author(s): Rudy Rizzo, Roland Kreis
Published in: NMR in Biomedicine, 2023, ISSN 0952-3480
Publisher: John Wiley & Sons Inc.
DOI: 10.1002/nbm.5016

Post-acquisition water-signal removal in 3D water‐unsuppressed 1H-MR spectroscopic imaging of the prostate.

Author(s): Stamatelatou A, Sima DM, Van Huffel S, van Asten JJ, Heerschap A, Scheenen TW
Published in: Magnetic Resonance in Medicine, Issue Volume89, Issue5, 2022, ISSN 0740-3194
Publisher: John Wiley & Sons Inc.
DOI: 10.1002/mrm.29565

A comparison of non-negative matrix underapproximation methods for the decomposition of magnetic resonance spectroscopy data from human brain tumors

Author(s): Gulnur Ungan, Carles Arús, Alfredo Vellido, Margarida Julià-Sapé
Published in: nmr in biomedicine, 2023, ISSN 0952-3480
Publisher: John Wiley & Sons Inc.
DOI: 10.1002/nbm.5020

Ensemble Learning for Multiple Sclerosis Disability Estimation Using Brain Structural Connectivity

Author(s): Berardino Barile, Aldo Marzullo, Claudio Stamile, Françoise Durand-Dubief, and Dominique Sappey-Marinier
Published in: Brain Connectivity, Issue VOLUME 12, ISSUE 5 / JUNE 2022, 2022, ISSN 2158-0022
Publisher: Mary Ann Liebert, Inc., publishers
DOI: 10.1089/brain.2020.1003

Deuterium echo-planar spectroscopic imaging (EPSI) in the human liver in vivo at 7 T

Author(s): Kyung Min Nam, Ayhan Gursan, Alex A. Bhogal, Jannie P. Wijnen, Dennis W. J. Klomp, Jeanine J. Prompers, Arjan D. Hendriks
Published in: Magnetic Resonance in Medicine, 2023, ISSN 0740-3194
Publisher: John Wiley & Sons Inc.
DOI: 10.1002/mrm.29696

MP-PCA denoising for diffusion MRS data: promises and pitfalls

Author(s): Mosso J, Simicic D, Şimşek K, Kreis R, Cudalbu C, Jelescu IO.
Published in: Neuroimage, 2022, Page(s) Volume 263, November 2022, 119634, ISSN 1053-8119
Publisher: Academic Press
DOI: 10.1016/j.neuroimage.2022.119634

Immune System-Related Changes in Preclinical GL261 Glioblastoma under TMZ Treatment: Explaining MRSI-Based Nosological Imaging Findings with RT-PCR Analyses.

Author(s): Pilar Calero-Pérez; Shuang Wu; Carles Arús; Ana Paula Candiota
Published in: Cancers, Issue 13(11), May 2021, 2021, Page(s) 2663, ISSN 2072-6694
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/cancers13112663

Classification of multiple sclerosis clinical profiles using machine learning and grey matter connectome.

Author(s): Barile B., Ashtari P., Stamile C., Marzullo A., Maes F., Durand-Dubief F., Van Huffel S., Sappey-Marinier D.,
Published in: Frontiers Robotics AI, Issue Volume 9 - 2022, 2022, ISSN 2296-9144
Publisher: FRONTIERS
DOI: 10.3389/frobt.2022.926255

Establishing Imaging Biomarkers of Host Immune System Efficacy during Glioblastoma Therapy Response: Challenges, Obstacles and Future Perspectives

Author(s): Ana Paula Candiota; Carles Arús
Published in: Metabolites, Issue (12)3, March 2022, 2022, Page(s) 243, ISSN 2218-1989
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/metabo12030243

Diffusion-weighted SPECIAL improves the detection of J-coupled metabolites at ultrahigh magnetic field

Author(s): Jessie Mosso, Dunja Simicic, Bernard Lanz, Rolf Gruetter, Cristina Cudalbu
Published in: Magnetic Resonance in Medicine, 2023, ISSN 0740-3194
Publisher: John Wiley & Sons Inc.
DOI: 10.1002/mrm.29805

Denoising single MR spectra by deep learning: Miracle or mirage?

Author(s): Dziadosz M, Rizzo R, Kyathanahally SP, Kreis R.
Published in: Magnetic Resonance Medicine, 2023, ISSN 0740-3194
Publisher: John Wiley & Sons Inc.
DOI: 10.1002/mrm.29762

Factorizer: A scalable interpretable approach to context modeling for medical image segmentation

Author(s): Pooya Ashtari; Diana M. Sima; Lieven De Lathauwer; Dominique Sappey-Marinier; Frederik Maes; Sabine Van Huffel
Published in: Medical Image Analysis, Issue 84, 2023, ISSN 1361-8415
Publisher: Elsevier BV
DOI: 10.1016/j.media.2022.102706

Proton metabolic mapping of the brain at 7 T using a two-dimensional free induction decay–echo-planar spectroscopic imaging readout with lipid suppression.

Author(s): Nam KM, Hendriks AD, Boer VO, Klomp DWJ, Wijnen JP, Bhogal AA
Published in: NMR in Biomedicine, 2022, ISSN 0952-3480
Publisher: John Wiley & Sons Inc.
DOI: 10.1002/nbm.4771

Developments in proton MR spectroscopic imaging of prostate cancer

Author(s): Angeliki Stamatelatou; Tom W. J. Scheenen; Arend Heerschap
Published in: Magnetic Resonance Materials in Physics, Issue 35, 2022, ISSN 1352-8661
Publisher: Springer
DOI: 10.1007/s10334-022-01011-9

High Angular Resolution Susceptibility Imaging and Estimation of Fiber Orientation Distribution Functions in Primate Brain

Author(s): Dimitrios G. Gkotsoulias, Roland Müller, Carsten Jäger, Torsten Schlumm, Toralf Mildner, Cornelius Eichner, André Pampel, Jennifer Jaffe, Tobias Gräßle, Niklas Alsleben, Jingjia Chen, Catherine Crockford, Roman Wittig, Chunlei Liu, Harald E. Möller
Published in: NeuroImage, Issue Volume 276, 1 August 2023, 120202, 2023, ISSN 1053-8119
Publisher: Academic Press
DOI: 10.1101/2022.10.23.513390

RF Coil Setup for 31P MRSI in Tongue Cancer in vivo at 7 T

Author(s): Forner R, Nam K, de Koning KJ, van der Velden T, van der Kemp W, Raaijmakers Am Klomp DWJ
Published in: Frontiers in Neurology, Issue Volume 12 - 2021, 2021, ISSN 1664-2295
Publisher: Frontiers Research Foundation
DOI: 10.3389/fneur.2021.695202

NIfTI-MRS: A standard data format for magnetic resonance spectroscopy

Author(s): Clarke W, Mikkelsen M, Oeltzschner G, Bell TK, Shamaei A, Soher BJ, Emir U, Wilson W
Published in: Magnetic Resonance in Medicine, Issue Volume88, Issue6, 2022, Page(s) Pages 2358-2370, ISSN 0740-3194
Publisher: John Wiley & Sons Inc.
DOI: 10.1002/mrm.29418

New multiple sclerosis lesion segmentation and detection using pre-activation U-Net

Author(s): Pooya Ashtari; Berardino Barile; Sabine Van Huffel; Dominique Sappey-Marinier
Published in: Frontiers in Neuroscience, Issue Volume 16 - 2022, 2022, ISSN 1662-4548
Publisher: Frontiers Research Foundation
DOI: 10.3389/fnins.2022.975862

Data Augmentation using Generative Adversarial Neural Networks of Brain Structural Connectivity in Multiple Sclerosis

Author(s): Berardino Barile, Aldo Marzullo, Claudio Stamile, Françoise Durand-Dubief, Dominique Sappey-Marinier
Published in: Computer Methods and Programs in Biomedicine, 2021, ISSN 2666-9900
Publisher: Elsevier
DOI: 10.1016/j.cmpb.2021.106113

Model-informed unsupervised deep learning approaches to frequency and phase correction of MRS signals

Author(s): Shamaei A, Starcukova J, Pavlova I, Starcuk Z.
Published in: Magnetic Resonance in Medicine, 2022, ISSN 0740-3194
Publisher: John Wiley & Sons Inc.
DOI: 10.1002/mrm.29498

PET CMRglc mapping and 1H-MRS show altered glucose uptake and neurometabolic profiles in BDL rats

Author(s): Mosso J, Yin T, Poitry-Yamate C, Simicic D, Lepore M, McLin VA, Braissant O, Cudalbu C, Lanz B.
Published in: Analytical Biochemistry, Issue Volume 647, 15 June 2022, 114606, 2022, ISSN 0003-2697
Publisher: Academic Press
DOI: 10.1016/j.ab.2022.114606

Using Single-Voxel Magnetic Resonance Spectroscopy Data Acquired at 1.5T to Classify Multivoxel Data at 3T: A Proof-of-Concept Study

Author(s): Ungan G, Pons-Escoda A, Ulinic D, Arús C, Vellido A, Julià-Sapé M.
Published in: Cancers 2023, Issue 15(14):3709, 2023, ISSN 2072-6694
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/cancers15143709

Deep learning pipeline for quality filtering of MRSI spectra.

Author(s): Rakić M, Turco F, Weng G, Maes F, Sima DM, Slotboom J.
Published in: NMR Biomedicine, Issue e5012, 2023, ISSN 1099-1492
Publisher: John Wiley & Sons Inc.
DOI: 10.1002/nbm.5012

Physics-informed Deep Learning Approach to Quantification of Human Brain Metabolites from Magnetic Resonance Spectroscopy

Author(s): Shamaei A, Starcukova J, Starcuk Z.
Published in: Computers in Biology and Medicine, Issue Volume 158, May 2023, 106837, 2023, ISSN 0010-4825
Publisher: Pergamon Press Ltd.
DOI: 10.1016/j.compbiomed.2023.106837

Unsupervised Tensor Factorization for Classification of MS clinical Forms

Author(s): Berardino Barile, Aldo Marzullo, Claudio Stamile, Françoise Durand-Dubief, Dominique Sappey-Marinier
Published in: 25th International Conference in Pattern Recognition - ICPR 2020, Issue 2020, 2020
Publisher: ICPR 2020

Potential benefits from Multi-Echo Single-Shot Spectroscopy with a combined fitting process,

Author(s): Rudy Rizzo, Roland Kreis
Published in: ISMRM 2020, Issue ISMRM 2020, 2020
Publisher: ISMRM 2020

Accelerating CEST by 2D CAIPIRINHA: a simulation study on Z-spectra from 3D whole brain CEST-MRI

Author(s): K. M. Nam, A. Hendriks, D. Klomp, E. Wiegers, J. Wijnen
Published in: ESMRMB 2019, 2019
Publisher: ESMRMB 2019

Invisible receiver arrays? Proof of effective long distance RF arrays when tissue loss dominates

Author(s): K. M. Nam, Cezar Alborahal, Kaizad Rustomji, Tryfon Antonakakis, Catalina Arteaga de Castro, Jannie P. Wijnen, and Dennis W.J. Klomp
Published in: ISMRM 2020, 2020, Page(s) Poster
Publisher: ISMRM 2020

Low-Rank Convolutional Networks for Brain Tumor Segmentation

Author(s): Ashtari P., Maes F., Van Huffel S.,
Published in: MICCAI BrainLes 2020, 2021
Publisher: Springer
DOI: 10.1007/978-3-030-72084-1_42

Multimodal assessment of brain energy metabolism in a rat model of hepatic encephalopathy using 1H-MRS and 18F-FDG PET – a pilot study

Author(s): Jessie Mosso, Carole Poitry-Yamate, Dunja Simicic, Mario Lepore, Cristina Cudalbu, and Bernard Lanz
Published in: ISMRM20, 2020
Publisher: ISMRM20

Prediction of Multiple Sclerosis Disability using Machine Learning Ensemble of Boosting Methods based on structural brain connectivity

Author(s): Berardino Barile, Aldo Marzullo, Claudio Stamile, Françoise Durand-Dubief, Dominique Sappey-Marinier
Published in: ESMRMB 2020, 2020
Publisher: ESMRMB 2020

Brain structural connectivity data augmentation using Generative Adversarial Network

Author(s): B. Barile, C. Stamile, A. Marzullo, F. Durand-Dubief, D. Sappey-Marinier
Published in: 37th Annual Scientific Meeting of ESMRMB, 2020
Publisher: 37th Annual Scientific Meeting of ESMRMB

Enabling Fast Metabolic Mapping of the Brain using Lipid Crushing and an EPSI Readout at 7T

Author(s): K. M. Nam, Arjan Hendriks, Vincent O. Boer, Dennis D.J. Klomp, Jannie P. Wijnen, and Alex Bhogal
Published in: ISMRM 2020, Issue 2020 yearly, 2020
Publisher: ISMRM 2020

Relations between functional brain connectivity and intelligence using functional MRI and graphs techniques

Author(s): V. Ghibaudo, A. Stadler, B. Barile, F. Nusbaum, S. Mouchet-Mages, D. Sappey-Marinier
Published in: 37th Annual Scientific Meeting of ESMRMB, 2020
Publisher: ESMRMB

Silent EPSI using a gradient axis driven at 20 kHz

Author(s): Edwin Versteeg, K.M. Nam, Dennis Klomp, Jeroen Hendrikse, Alex Bhogal, Jeroen Siero, and Jannie Wijnen
Published in: ISMRM 2020, Issue ISMRM 2020, 2020
Publisher: ISMRM 2020

Deep Learning for Magnetic Resonance Spectroscopy Quantification: a Time-Frequency Analysis Approach

Author(s): Shamaei, Amirmohammad
Published in: Proceedings of the 26th Student EEICT 2020, 2020, ISBN 978-80-214-5868-0
Publisher: Brno University of Technology,

Implementation of high-resolution MRSI methods in a pre-clinical scanner, and optimization for brain longitudinal studies of therapy response in mice glioma model.

Author(s): Javed, Zoona
Published in: PhD Thesis in Electronic and Telecommunication Engineering, 2023
Publisher: Universitat Autònoma de Barcelona

Deliverables

Publications

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