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jMRUI specifications


Unique identifier OMICS_15260
Name jMRUI
Software type Package/Module
Interface Graphical user interface
Restrictions to use Academic or non-commercial use
Operating system Unix/Linux, Windows
Programming languages Java
Computer skills Medium
Version 5.2
Stability Stable
Maintained Yes


No version available


  • person_outline Michał Jabłoński

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Publication for jMRUI

jMRUI citations


Differences in Muscle Metabolism Between Triathletes and Normally Active Volunteers Investigated Using Multinuclear Magnetic Resonance Spectroscopy at 7T

Front Physiol
PMCID: 5891578
PMID: 29666584
DOI: 10.3389/fphys.2018.00300

[…] vpcr), maximal rate of oxidative phosphorylation, i.e., mitochondrial capacity (qmax), and time course of intracellular ph changes in skeletal muscle., all measured spectra were analyzed using the jmrui (java-based magnetic resonance user interface; version 5) with the amares (advanced method for accurate, robust, and efficient spectral fitting) time-domain fitting algorithm (vanhamme et al., […]


Imaging markers of response to combined BRAF and MEK inhibition in BRAF mutated vemurafenib sensitive and resistant melanomas

PMCID: 5908289
PMID: 29682188
DOI: 10.18632/oncotarget.24709

[…] prior and post water suppression (cubic voxel with 3 to 4 mm side, te/tr = 16 ms/2500 ms, 256 averages, 2048 points). preprocessing and quantitation of in vivo 1h-mrs data were performed using the jmrui software package: unsuppressed water peaks were quantified via the amares (advanced method for accurate, robust and efficient spectral) fitting, whereas choline peaks were quantified via quest […]


Persistent Long Term Structural, Functional, and Metabolic Changes After Stress Induced (Takotsubo) Cardiomyopathy

PMCID: 5841855
PMID: 29128863
DOI: 10.1161/CIRCULATIONAHA.117.031841

[…] modified look-locker imaging t1 mapping. data for t1 mapping were acquired with 3(3)3(3)5 and 5(3)3 schemes for native and postcontrast t1 measurement, respectively. 31p-cmrs data were analyzed in jmrui3.0 as described previously. the phosphocreatine/γ-adenosine triphosphate (pcr/γatp) ratio (which is the gold standard for in vivo assessment of myocardial energetic status) was determined […]


The Effects of β Alanine Supplementation on Muscle pH and the Power Duration Relationship during High Intensity Exercise

Front Physiol
PMCID: 5826376
PMID: 29515455
DOI: 10.3389/fphys.2018.00111

[…] as for the baseline visit. the integral of the carnosine-h2 peak [at ~8 parts per million (ppm)] was quantified relative to the water peak integral (×1,000) using the amares fitting algorithm in the jmrui (version 3) software package ( muscle [carnosine] was expressed as a ratio relative to the water peak. to determine the reliability of this assessment, a separate […]


Improved Exercise Tolerance with Caffeine Is Associated with Modulation of both Peripheral and Central Neural Processes in Human Participants

PMCID: 5816050
PMID: 29484298
DOI: 10.3389/fnut.2018.00006

[…] purposes (figures b,c)., for both baseline and exercise protocols, mrs data were quantified by peak fitting, with the assumption of prior knowledge, using the amares fitting algorithm in the jmrui (version 3) software package. spectra were fitted assuming the presence of the following peaks: pi, phosphodiester, pcr, α-atp (two peaks, amplitude ratio 1:1), γ-atp (two peaks, amplitude […]


Compositional marker in vivo reveals intramyocellular lipid turnover during fasting induced lipolysis

Sci Rep
PMCID: 5807358
PMID: 29426847
DOI: 10.1038/s41598-018-21170-x

[…] fat on t1-weighted images within ta and sol, using acquisition parameters as in the phantom validation (te = 35 ms, 5 s repetition time, and 64 averages). phantom and in vivo data were analysed in jmrui, and fitted with the amares algorithm using identical prior knowledge parameters: a single emcl resonance, gaussian lineshapes, soft constraints on emcl/imcl ch2 frequencies and linewidths, ch3 […]

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jMRUI institution(s)
Institute of Scientific Instruments of the CAS, Brno, Czech Republic; Faculty of Science, Masaryk University, Brno, Czech Republic
jMRUI funding source(s)
This work was funded by the European Union’s Seventh Framework Programme (FP7/2007-2013) under grant agreement n°ITN-GA-2012-316679–TRANSACT and by MEYS CR (LO1212), its infrastructure by MEYS CR and EC (CZ.1.05/2.1.00/01.0017) and by ASCR (RVO:68081731).

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