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Query: Extended Site:
Relaxometry based MRI brain segmentation
Contact person: Marco Comerci, marco.comerciibb.cnr.it


Description ▼
Development, tuning and testing of a software tool that calculates MRI relaxation rates and proton density voxel-wise (QMCI images), and segments most of the brain tissues, including multiple sclerosis lesions.
The current version, validated at 1 and 1. 5 Tesla, segments brain studies into the following 18 compartments: Gray Matter (GM); White Matter (WM); demyelinized/abnormal WM (AWM);  Cerebrospinal Fluid (CSF); Globus Pallidus; Putamen; Thalamus; Caudate Nucleus; Substantia Nigra; Red Nucleus; Dentate Nucleus; Muscle, Fat; Vitreous humor; Intra-Cranial and Extra-Cranial Connective tissues; Extra-Cranial Fluid; and Low Proton Density tissue. The software produces volumetric and relaxometric information of each compartment.
This model based segmentation uses relaxation rates, proton density and anatomical information.
The software is configurable and can be optimized in various environmental situations as different scanner characteristics and different anatomical regions (see also Relaxometry based MRI limb segmentation).
A module for automatic follow-up evaluation was also developed: it aligns basal and follow-up studies with rigid coregistration (normalized mutual information based of the SPM software), cuts out tissues not common to all studies and perform volumes and rates Pearson's analisys.
Application to neurological research: Aging; Alzheimer Disease; Schizophrenia; Degenerative disorders; Partial volume effect correction for PET and SPECT.
The improvements currently in testing phase include: 3T brain studies segmentation; Receiving and Transmission MRI inhomogeneity correction (critical for 3T studies); Automatic real flip angle estimation; Registration of misaligned semi-series. Affine registration of basal and follow-up to take into account MR gradient derive; Improved anatomical and signal model for brain studies.
Planned future improvements are: Fast Spin Echo support; T1w-like 3D FFE support; Other 3D fast sequences for rates maps; Further improved anatomical and signal model for brain studies; Iterative segmentation.

Actors ▼
Arturo Brunetti, marco.comerciibb.cnr.it
Mario Quarantelli, quaranteunina.it
Anna Prinster, anna.prinsteribb.cnr.it
Bruno Alfano, bruno.alfanoibb.cnr.it
Marco Comerci, marco.comerciibb.cnr.it

Keywords ▼
MRI, segmentation, relaxometry, SPM, followup, basal,

Research Areas ▼
Quantitative Imaging

Figures ▼

QMCI image and corresponding segmented image


Related Activities ▼
Relaxometry based MRI limb segmentation (1434 views)
Software development of digital MRI brain phantom (3077 views)

Related Papers ▼
A Novel Multiparametric Approach to 3D Quantitative MRI of the Brain (public domain) (85 views)
Assessment of scanner performance and normalization of estimated relaxation rate values (restricted access) (54 views)
Brain Characterization Using Normalized Quantitative Magnetic Resonance Imaging (restricted access) (56 views)
Clinical Applications of Imaging Disease Burden in Multiple Sclerosis - MRI and Advanced Imaging Techniques (restricted access) (60 views)
Histogram-Based Characterization of Healthy and Ischemic Brain Tissues Using Multiparametric MR Imaging Including Apparent Diffusion Coefficient Maps and Relaxometry (public domain) (56 views)
Magnetic resonance imaging in the assessment of patients with heart failure (restricted access) (85 views)
Measurement of Whole-Brain Atrophy in Multiple Sclerosis (restricted access) (49 views)
Novel whole brain segmentation and volume estimation using quantitative MRI (restricted access) (55 views)
Quantitative multi-parameter mapping of R1, PD, MT, and R2∗ at 3T: a multi-center validation (restricted access) (67 views)

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* Grey: white matter ratio at diagnosis and the risk of 10-year multiple sclerosis progression (12 views)
Moccia M, Quarantelli M, Lanzillo R, Cocozza S, Carotenuto A, Carotenuto B, Alfano B, Prinster A, Triassi M, Nardone A, Palladino R, Brunetti A, Brescia Morra V
Eur J Neurol (ISSN: 1468-1331electronic, 1351-5101linking), 2017 Jan; 24(1): 195-204.

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* Assessment of an automated vein segmentation algorithm for MRI brain acquisitions at different field strengths (48 views) (PDF 27 views)
Monti S, Borrelli P, Cocozza S, Straub S, Ladd ME, Salvatore M, Mancini M, Tedeschi E, Palma G
6th Annual Meeting Of The International Society For Neurovascular Disease, 2016 Apr; N/D: N/D-N/D.

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* Multi-parametric algorithm for the automated segmentation of brain vein (51 views) (PDF 34 views)
Monti S, Borrelli P, Cocozza S, Salvatore M, Mancini M, Tedeschi E, Palma G
6th Annual Meeting Of The International Society For Neurovascular Disease, 2016 Apr; N/D: N/D-N/D.

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* Diffusion volume (DV) measurement in endometrial and cervical cancer: A new MRI parameter in the evaluation of the tumor grading and the risk classification (360 views) (PDF 61 views)
Mainenti PP, Pizzuti LM, Segreto S, Comerci M, Fronzo SD, Romano F, Crisci V, Smaldone M, Laccetti E, Storto G, Alfano B, Maurea S, Salvatore M, Pace L
Eur J Radiol (ISSN: 0720-048x, 1872-7727electronic), 2016 Jan; 85(1): 113-124.

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* Cerebral Involvement in Stargardt's Disease: A VBM and TBSS Study (53 views)
Gaia O, Melillo P, Sirio C, D'Alterio FM, Prinster A, Testa F, Brunetti A, Simonelli F, Quarantelli M
Invest Ophthalmol Vis Sci (ISSN: 1552-5783electronic, 0146-0404linking), 2015 Nov; 56(12): 7388-7397.

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* A multiparametric and multiscale approach to automated segmentation of brain veins (63 views) (PDF 70 views)
Monti S, Palma G, Borrelli P, Tedeschi E, Cocozza S, Salvatore M, Mancini M
Proceedings Of Engineering In Medicine And Biology Society, 2015; N/D: 3041-3044.

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* MULTIPARAMETRIC AUTOMATED SEGMENTATION OF BRAIN VEINS (88 views)
Monti S, Palma G, Tedeschi E, Borrelli P, Cocozza S, Salvatore M, Mancini M
Veins And Lymphatics (ISSN: 2279-7483), 2015; 4(s1): 13-13.

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* Evaluation of supervised methods for the classification of major tissues and subcortical structures in multispectral brain magnetic resonance images (106 views) (PDF 63 views)
Murino L, Granata D, Carfora MF, Selvan SE, Alfano B, Amato U, Larobina M
Comput Med Imaging Graph Elsevier Ltd (ISSN: 0895-6111, 1879-0771), 2014 Jul; 38(5): 337-347.

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* Clinical And Magnetic Resonance Imaging Predictors Of Disease Progression In Multiple Sclerosis: A Nine-Year Follow-Up Study (91 views) (PDF 65 views)
Lavorgna L, Bonavita S, Ippolito D, Lanzillo R, Salemi G, Patti F, Valentino P, Coniglio G, Buccafusca M, Paolicelli D, D'Ambrosio A, Bresciamorra V, Savettieri G, Zappia M, Alfano B, Gallo A, Simone I, Tedeschi G
Mult Scler (ISSN: 1352-4585, 1352-2458, 1477-0970), 2014 Feb; 20(2): 220-226.

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* Semiautomatic regional segmentation to measure orbital fat volumes in thyroid-associated ophthalmopathy. A validation study (92 views) (PDF 81 views)
Comerci M, Elefante A, Strianese D, Senese R, Bonavolonta P, Alfano B, Bonavolonta B, Brunetti A
Neuroradiol J (ISSN: 1971-4009, 1971-4009print, 1971-4009linking), 2013 Aug; 26(4): 373-379.

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* An MRI digital brain phantom for validation of segmentation methods (91 views) (PDF 246 views)
Alfano B, Comerci M, Larobina M, Prinster A, Hornak JP, Selvan SE, Amato U, Quarantelli M, Tedeschi G, Brunetti A, Salvatore M
Med Image Anal (ISSN: 1361-8415, 1361-8423, 1361-8415linking), 2011 Jun; 15(3): 329-339.

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* A Computer Vision Approach to Micro-Nucleus automatic detection and surface measurements (94 views)
Ceccarelli M, Speranza A, Grimaldi D, Lamonaca F
Vols 1 3i2mtc, 2010 Sep 10; 59(9): 2383-2390.

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* Correlation between fatigue and brain atrophy and lesion load in multiple sclerosis patients independent of disability (86 views) (PDF 59 views)
Tedeschi G, Dinacci D, Lavorgna L, Prinster A, Savettieri G, Quattrone A, Livrea P, Messina C, Reggio A, Servillo G, Bresciamorra V, Orefice G, Paciello M, Brunetti A, Paolillo A, Coniglio G, Bonavita S, Di Costanzo A, Bellacosa A, Valentino P, Quarantelli M, Patti F, Salemi G, Cammarata E, Simone I, Salvatore M, Bonavita V, Alfano B
J Neurol Sci (ISSN: 0022-510x), 2007 Dec 15; 263(1-2): 15-19.

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* An ontology approach for classification of abnormal white matter in patients with Multiple Sclerosis (90 views) (PDF 78 views)
Alfano B, Brunetti A, De Pietro G, Esposito A
Lecture Notes In Computer Science (ISSN: 0302-9743, 0302-974335404636319783540463634, 0302-974335402975459783540297543), 2007; 4799LNCS: 389-402.

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* An ontology-based technique for validation of MRI brain segmentation methods (90 views) (PDF 67 views)
Alfano B, Comerci M, De Pietro G, Esposito A
Lecture Notes In Computer Science (ISSN: 0302-9743, 0302-974335404636319783540463634, 0302-974335402975459783540297543), 2007; 4805LNCS(PART1): 566-575.

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* Modifications of brain tissue volumes in facioscapulohumeral dystrophy (110 views)
Quarantelli M, Lanzillo R, Del Vecchio W, Mollica C, Prinster A, Iadicicco L, Iodice V, Santoro L, Salvatore M
Neuroimage (ISSN: 1053-8119, 1053-8119linking), 2006 Sep; 32(3): 1237-1242.

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* Mapping The Relative Contribution Of Gray Matter Activity Versus Volume In Brain Pet. A New Approach (82 views) (PDF 65 views)
Berkouk K, Quarantelli M, Prinster A, Landeau B, Alfano B, Baron JC
J Neuroimaging (ISSN: 1051-2284), 2006 Jul; 16(3): 224-235.

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* Brain atrophy and lesion load in a large population of patients with multiple sclerosis (91 views) (PDF 78 views)
Tedeschi G, Lavorgna L, Russo P, Prinster A, Dinacci D, Savettieri G, Quattrone A, Livrea P, Messina C, Reggio A, Bresciamorra V, Orefice G, Paciello M, Brunetti A, Coniglio G, Bonavita S, Di Costanzo A, Bellacosa A, Valentino P, Quarantelli M, Patti F, Salemi G, Cammarata E, Simone IL, Salvatore M, Bonavita V, Alfano B
Neurology (ISSN: 0028-3878, 1526-632x), 2005 Jul 26; 65(2): 280-285.

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* Automated brain MR segmentation in a large MS population (82 views)
Tedeschi G, Dinacci D, Lavorgna L, Bonavita V, Livrea P, Quattrone A, Messina C, Savettieri G, Paciello M, Reggio A, Brunetti A, Russo P, Alfano B
Neurology (ISSN: 0028-3878, 1526-632x), 2004 Apr 13; 62(7): N/D-N/D.

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* Integrated software for the analysis of brain PET/SPECT studies with partial-volume-effect correction (81 views) (PDF 64 views)
Quarantelli M, Berkouk K, Prinster A, Landeau B, Svarer C, Balkay L, Alfano B, Brunetti A, Baron JC, Salvatore M
Journal Of Nuclear Medicine (ISSN: 0161-5505, 1535-5667, 1535-5667electronic), 2004 Feb; 45(2): 192-201.

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* Segmentation of magnetic resonance brain images through discriminant analysis (118 views) (PDF 63 views)
Amato U, Larobina M, Antoniadis A, Alfano B
J Neurosci Methods (ISSN: 0165-0270), 2003 Dec 30; 131(1-2): 65-74.

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* Brain tissue volume changes in relapsing-remitting multiple sclerosis: Correlation with lesion load (92 views) (PDF 62 views)
Quarantelli M, Ciarmiello A, Morra VB, Orefice G, Larobina M, Lanzillo R, Schiavone V, Salvatore E, Alfano B, Brunetti A
Neuroimage (ISSN: 1053-8119, 1053-8119linking), 2003 Feb; 18(2): 360-366.

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* Ex vivo assessment of trabecular bone structure from three-dimensional projection reconstruction MR micro-images (91 views)
Accardo A, Candido G, Jellù V, Toffanin R, Vittur F
Ieee Trans Biomed Eng (ISSN: 0018-9294), 2003; 50(8): 967-977.

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Measurement of global brain atrophy in Alzheimer's disease with unsupervised segmentation of spin-echo MRI studies (91 views) (PDF 89 views)
Brunetti A, Postiglione A, Tedeschi E, Ciarmiello A, Quarantelli M, Covelli EM, Milan G, Larobina M, Soricelli A, Sodano A, Alfano B
Journal Of Magnetic Resonance Imaging (ISSN: 1053-1807), 2000 Mar; 11(3): 260-266.

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Measurement of global drain atrophy in Alzheimer's disease with unsupervised segmentation of spin-echo MRI studies (72 views)
Brunetti A, Postiglione A, Tedeschi E, Ciarmiello A, Quarantelli M, Covelli E, Milan G, Larobina M, Soricelli A, Sodano A, Alfano B
Journal Of Magnetic Resonance Imaging (ISSN: 1053-1807), 2000 Mar; 11(3): N/D-N/D.

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Validation of an automated regional brain segmentation method using a stereotactic Talairach approach (70 views)
Larobina M, Quarantelli M, Tedeschi E, Brunetti A, Alfano B, Salvatore M
Surgeryinternational Congress Series Car 97 Computer Assisted Radiology And (ISSN: 0531-5131), 1999; 1191: N/D-N/D.

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Fully-automated multispectral MR brain segmentation for detection and volumetric measurement of white matter lesions (71 views)
Alfano B, Brunetti A, Quarantelli M, Larobina M, Covelli EM, Tedeschi E, Ciarmiello A, Salvatore M
Surgeryinternational Congress Series Car 97 Computer Assisted Radiology And (ISSN: 0531-5131), 1997; 1134: N/D-N/D.

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Unsupervised multifeature MR segmentation for assessment of intracranial liquoral spaces: Comparison with conventional linear measures (71 views)
Brunetti A, Covelli E, Tedeschi E, Quarantelli M, Soricelli A, Salvatore M, Alfano B
Surgeryinternational Congress Series Car 97 Computer Assisted Radiology And (ISSN: 0531-5131), 1996; 1124: N/D-N/D.

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Automatic segmentation and evaluation of the volume of gray matter, white matter and cerebrospinal fluid by MRI (72 views)
ALFANO B, ARPAIA M, BRUNETTI A, COVELLI E, CASTELLI L, CARACO C, SORICELLI A, TEDESCHI E, SALVATORE M
Neuroradiology 1994, 1994; N/D: N/D-N/D.

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35 Records (25 excluding Abstracts and Conferences).
Total impact factor: 92.931 (72.886 excluding Abstracts and Conferences).
Total 5-year impact factor: 97.871 (75.683 excluding Abstracts and Conferences).



Your bibliography query: ([btitle, keywords, abstract] SEGMENTATION)



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