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Applications of statistical methods in quantitative magnetic resonance imaging
Umeå universitet, Medicinska fakulteten, Institutionen för strålningsvetenskaper, Radiofysik.ORCID-id: 0000-0002-0455-8904
2017 (Engelska)Doktorsavhandling, sammanläggning (Övrigt vetenskapligt)
Abstract [en]

Magnetic resonance imaging, MRI, offers a vast range of imaging methods that can be employed in the characterization of tumors. MRI is generally used in a qualitative way, where radiologists interpret the images for e.g. diagnosis, follow ups, or assessment of treatment response. In the past decade, there has been an increasing interest for quantitative imaging, which give repeatable measurements of the anatomy. Quantitative imaging allows for objective analysis of the images, which are grounded in physical properties of the underlying tissues. The aim of this thesis was to improve quantitative measurements of Dynamic contrast enhanced MRI (DCE-MRI), and the texture analysis of diffusion weighted MRI (DW-MRI).

DCE-MRI measures perfusion, which is the delivery of blood, oxygen and nutrients to the tissues. The exam involves continuously imaging the region of interest, e.g. a tumor, while injecting a contrast agent (CA) in the blood stream. By analyzing how fast and how much CA leaks out into the tissues, the cell density and the permeability of the capillaries can be estimated. Tumors often have an irregular and broken vasculature, and DCE-MRI can aid in tumor grading or treatment assessment. One step is crucial when performing DCE-MRI analysis, the quantification of CA in the tissue. The CA concentration is difficult to measure accurately due to uncertainties in the imaging, properties of the CA, and physiology of the patient. Paper I, the possibility of using two aspects of the MRI data, phase and magnitude, for improved CA quantification, is explored. We found that the combination of phase and magnitude information improved the CA quantification in regions with high CA concentration, and was more advantageous for high field strength scanners.

DW-MRI measures the diffusion of water in and between cells, which reflects the cell density and structure of the tissue. The structure of a tumor can give insights into the prognosis of the disease. Tumors are heterogeneous, both genetically and in the distribution of cells, and tumors with high intratumoral heterogeneity have poorer prognosis. This heterogeneity can be measured using texture analysis. In 1973, Haralick et al. presented a texture analysis method using a gray level co-occurrence matrix, GLCM, to gauge the spatial distribution of gray levels in the image. This method of assessing texture in images has been successfully applied in many areas of research, from satellite images to medical applications. Texture analysis in treatment outcome assessment is studied in Paper II, where we showed that texture can distinguish between groups of patients with different survival times, in images acquired prior to treatment start.

However, this type of texture analysis is not inherently quantitative in the way it is calculated today. This was studied in Paper III, where we investigated how texture features were affected by five parameters related to image acquisition and pre-processing. We found that the texture feature values were dependent on the choice of these imaging and preprocessing parameters. In Paper IV, a novel method for calculating Haralick texture features was presented, which makes the texture features asymptotically invariant to the size of the GLCM. This method allows for comparison of textures between images that have been analyzed in different ways.

In conclusion, the work in this thesis has been aimed at improving quantitative analysis of tumors using MRI and texture analysis.

Ort, förlag, år, upplaga, sidor
Umeå: Umeå universitet , 2017. , s. 65
Serie
Umeå University medical dissertations, ISSN 0346-6612 ; 1900
Nyckelord [en]
Quantitative imaging, tumor imaging, dynamic contrast-enhanced MRI, diffusion weighted MRI, texture analysis
Nationell ämneskategori
Radiologi och bildbehandling
Forskningsämne
radiofysik
Identifikatorer
URN: urn:nbn:se:umu:diva-134997ISBN: 978-91-7601-729-6 (tryckt)OAI: oai:DiVA.org:umu-134997DiVA, id: diva2:1095719
Disputation
2017-06-09, Bergasalen, byggnad 27, Norrlands universitetssjukhus, Umeå, 09:00 (Engelska)
Opponent
Handledare
Tillgänglig från: 2017-05-19 Skapad: 2017-05-15 Senast uppdaterad: 2024-07-02Bibliografiskt granskad
Delarbeten
1. Combining phase and magnitude information for contrast agent quantification in dynamic contrast-enhanced MRI using statistical modeling
Öppna denna publikation i ny flik eller fönster >>Combining phase and magnitude information for contrast agent quantification in dynamic contrast-enhanced MRI using statistical modeling
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2015 (Engelska)Ingår i: Magnetic Resonance in Medicine, ISSN 0740-3194, E-ISSN 1522-2594, Vol. 74, nr 4, s. 1156-1164Artikel i tidskrift (Refereegranskat) Published
Abstract [en]

Purpose: The purpose of this study was to investigate, using simulations, a method for improved contrast agent (CA) quantification in DCE-MRI.

Methods: We developed a maximum likelihood estimator that combines the phase signal in the DCE-MRI image series with an additional CA estimate, e.g. the estimate obtained from magnitude data. A number of simulations were performed to investigate the ability of the estimator to reduce bias and noise in CA estimates. Noise levels ranging from that of a body coil to that of a dedicated head coil were investigated at both 1.5T and 3T.

Results: Using the proposed method, the root mean squared error in the bolus peak was reduced from 2.24 to 0.11 mM in the vessels and 0.16 to 0.08 mM in the tumor rim for a noise level equivalent of a 12-channel head coil at 3T. No improvements were seen for tissues with small CA uptake, such as white matter.

Conclusion: Phase information reduces errors in the estimated CA concentrations. A larger phase response from higher field strengths or higher CA concentrations yielded better results. Issues such as background phase drift need to be addressed before this method can be applied in vivo.

Ort, förlag, år, upplaga, sidor
Wiley-Blackwell, 2015
Nyckelord
dynamic contrast-enhanced MRI, contrast agent quantification, phase, inverse problem
Nationell ämneskategori
Medicinsk bildvetenskap Sannolikhetsteori och statistik Radiologi och bildbehandling
Identifikatorer
urn:nbn:se:umu:diva-95051 (URN)10.1002/mrm.25490 (DOI)000364215200028 ()25324043 (PubMedID)2-s2.0-84941921833 (Scopus ID)
Forskningsfinansiär
Vetenskapsrådet, 340-2013- 5342, 13514Cancerfonden, CAN 2010/381
Tillgänglig från: 2014-10-21 Skapad: 2014-10-21 Senast uppdaterad: 2025-02-09Bibliografiskt granskad
2. ADC texture-An imaging biomarker for high-grade glioma?
Öppna denna publikation i ny flik eller fönster >>ADC texture-An imaging biomarker for high-grade glioma?
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2014 (Engelska)Ingår i: Medical physics (Lancaster), ISSN 0094-2405, Vol. 41, nr 10, s. 101903-Artikel i tidskrift (Refereegranskat) Published
Abstract [en]

Purpose:

Survival for high-grade gliomas is poor, at least partly explained by intratumoral heterogeneity contributing to treatment resistance. Radiological evaluation of treatment response is in most cases limited to assessment of tumor size months after the initiation of therapy. Diffusion-weighted magnetic resonance imaging (MRI) and its estimate of the apparent diffusion coefficient (ADC) has been widely investigated, as it reflects tumor cellularity and proliferation. The aim of this study was to investigate texture analysis of ADC images in conjunction with multivariate image analysis as a means for identification of pretreatment imaging biomarkers.

Methods:

Twenty-three consecutive high-grade glioma patients were treated with radiotherapy (2 Gy/60 Gy) with concomitant and adjuvant temozolomide. ADC maps and T1-weighted anatomical images with and without contrast enhancement were collected prior to treatment, and (residual) tumor contrast enhancement was delineated. A gray-level co-occurrence matrix analysis was performed on the ADC maps in a cuboid encapsulating the tumor in coronal, sagittal, and transversal planes, giving a total of 60 textural descriptors for each tumor. In addition, similar examinations and analyses were performed at day 1, week 2, and week 6 into treatment. Principal component analysis (PCA) was applied to reduce dimensionality of the data, and the five largest components (scores) were used in subsequent analyses. MRI assessment three months after completion of radiochemotherapy was used for classifying tumor progression or regression.

Results:

The score scatter plots revealed that the first, third, and fifth components of the pretreatment examinations exhibited a pattern that strongly correlated to survival. Two groups could be identified: one with a median survival after diagnosis of 1099 days and one with 345 days, p = 0.0001.

Conclusions:

By combining PCA and texture analysis, ADC texture characteristics were identified, which seems to hold pretreatment prognostic information, independent of known prognostic factors such as age, stage, and surgical procedure. These findings encourage further studies with a larger patient cohort. (C) 2014 Author(s).

Nyckelord
texture analysis, glioma, multivariate image analysis, ADC
Nationell ämneskategori
Medicin och hälsovetenskap
Identifikatorer
urn:nbn:se:umu:diva-96625 (URN)10.1118/1.4894812 (DOI)000343032400019 ()2-s2.0-84907153252 (Scopus ID)
Tillgänglig från: 2014-11-27 Skapad: 2014-11-24 Senast uppdaterad: 2024-07-02Bibliografiskt granskad
3. Haralick texture features from apparent diffusion coefficient (ADC) MRI images depend on imaging and pre-processing parameters
Öppna denna publikation i ny flik eller fönster >>Haralick texture features from apparent diffusion coefficient (ADC) MRI images depend on imaging and pre-processing parameters
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2017 (Engelska)Ingår i: Scientific Reports, E-ISSN 2045-2322, Vol. 7, artikel-id 4041Artikel i tidskrift (Refereegranskat) Published
Abstract [en]

In recent years, texture analysis of medical images has become increasingly popular in studies investigating diagnosis, classification and treatment response assessment of cancerous disease. Despite numerous applications in oncology and medical imaging in general, there is no consensus regarding texture analysis workflow, or reporting of parameter settings crucial for replication of results. The aim of this study was to assess how sensitive Haralick texture features of apparent diffusion coefficient (ADC) MR images are to changes in five parameters related to image acquisition and pre-processing: noise, resolution, how the ADC map is constructed, the choice of quantization method, and the number of gray levels in the quantized image. We found that noise, resolution, choice of quantization method and the number of gray levels in the quantized images had a significant influence on most texture features, and that the effect size varied between different features. Different methods for constructing the ADC maps did not have an impact on any texture feature. Based on our results, we recommend using images with similar resolutions and noise levels, using one quantization method, and the same number of gray levels in all quantized images, to make meaningful comparisons of texture feature results between different subjects.

Ort, förlag, år, upplaga, sidor
Nature Publishing Group, 2017
Nationell ämneskategori
Radiologi och bildbehandling
Identifikatorer
urn:nbn:se:umu:diva-134993 (URN)10.1038/s41598-017-04151-4 (DOI)000403874900024 ()28642480 (PubMedID)2-s2.0-85021181472 (Scopus ID)
Anmärkning

Originally included in thesis in manuscript form.

Tillgänglig från: 2017-05-15 Skapad: 2017-05-15 Senast uppdaterad: 2023-03-23Bibliografiskt granskad
4. Gray-level invariant Haralick texture features
Öppna denna publikation i ny flik eller fönster >>Gray-level invariant Haralick texture features
2019 (Engelska)Ingår i: PLOS ONE, E-ISSN 1932-6203, Vol. 14, nr 2, artikel-id e0212110Artikel i tidskrift (Refereegranskat) Published
Abstract [en]

Haralick texture features are common texture descriptors in image analysis. To compute the Haralick features, the image gray-levels are reduced, a process called quantization. The resulting features depend heavily on the quantization step, so Haralick features are not reproducible unless the same quantization is performed. The aim of this work was to develop Haralick features that are invariant to the number of quantization gray-levels. By redefining the gray-level co-occurrence matrix (GLCM) as a discretized probability density function, it becomes asymptotically invariant to the quantization. The invariant and original features were compared using logistic regression classification to separate two classes based on the texture features. Classifiers trained on the invariant features showed higher accuracies, and had similar performance when training and test images had very different quantizations. In conclusion, using the invariant Haralick features, an image pattern will give the same texture feature values independent of image quantization.

Ort, förlag, år, upplaga, sidor
Public Library of Science, 2019
Nationell ämneskategori
Medicinsk bioteknologi
Identifikatorer
urn:nbn:se:umu:diva-134995 (URN)10.1371/journal.pone.0212110 (DOI)000459709100037 ()30794577 (PubMedID)2-s2.0-85062005861 (Scopus ID)
Anmärkning

Originally included in thesis in manuscript form

Tillgänglig från: 2017-05-15 Skapad: 2017-05-15 Senast uppdaterad: 2024-07-02Bibliografiskt granskad

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