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Modelling in perfusion MR imaging
Válková, Hana ; Jiřík, Radovan (referee) ; Kratochvíla, Jiří (advisor)
This thesis deals with the magnetic resonance perfusion data analysis especially DCEMRI. In its introduction the thesis describes the problem of DCE-MRI data aquisition, the necessity of appropriate contrast agent and basic principles of perfusion analysis. The dynamic behavior of contrast agent vascular distribution can be described by arterial input function (AIF). The shape of the curves close to the area of interest is affected by dispersion which is called vascular transport function (VTF) due to the distribution of the contrast agent to the region of interest. Finally the tissue residual function describes system behavior of tissue. The practical part of the diploma thesis is aimed at implementation of model curves AIF, VTF and TRF. Furthermore, a simulation program was created for easy manipulation with introduced models moreover the program is used to perform an estimation of perfusion parameters based on nonblind deconvolution. The method is validated on synthetic data and illustrated on clinical data of the renal cell carcinoma patient.
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Compressed sensing in magnetic resonance perfusion imaging.
Mangová, Marie ; Veselý, Vítězslav (referee) ; Rajmic, Pavel (advisor)
Magnetic resonance perfusion imaging is a today's very promising method for medicine diagnosis. This thesis deals with a sparse representation of signals, low-rank matrix recovery and compressed sensing, which allows overcoming present physical limitations of magnetic resonance perfusion imaging. Several models for reconstruction of measured perfusion data is introduced and numerical methods for their software implementation, which is an important part of the thesis, is mentioned. Proposed models are verified on simulated and real perfusion data from magnetic resonance.
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Noise and artifact suppression in fMRI data based on multi-echo data and independent component analysis
Pospíšil, Jan ; Gajdoš, Martin (referee) ; Mikl, Michal (advisor)
The main task of this work is to design an algorithm for suppressing unwanted noise and artifacts in fMRI data using the analysis of independent components and multi-echo data. The theoretical part deals with the basic principles of magnetic resonance, including construction and image data processing. The practical part presents a pilot design of a method inspired by a professional publication in the Matlab software environment, where this design is subsequently tested on real fMRI data provided by the Laboratory of Multimodal and Functional Imaging, CEITEC MU.
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Emerging Trends in Dendrochronology
Horáček, Tomáš ; Neuwirthová, Ludmila (referee) ; Mikulka, Jan (advisor)
Tato práce se zabývá popisem současných a experimentálních metod odběru vzorků pomocí presslerova nebozezu, výřezů z kmene, fotografie, rentgenu, počítačové tomografie a magnetické rezonance na poli dendrochronologického výzkumu. V práci jsou rozebírány destruktivní a nedesktruktivní metody odběru vzorků. Je také kladen důraz na původ vzorků: zdali je možno využít destruktivní metody nebo zdali je to nemožné jako v případě vzácných archeologických objektů. Dále popisuje standardní optometrickou metody a další experimentální metody fungujicí na principu kontranstního zpracování obrazu za účelem rozeznání letokruhů. V práci jsou také popsány různé druhy metod softwarového zpracovnání kde jako vstup slouží buď série dat nebo obraz letokruhů. Další rozdíly tvoří vymezené spektrum uvedených prací, některé práce se zaměřují na zpracování obrazu od píky tedy od pořízené fotografie až po hotové datovaní, některé však zajímá pouze úzký sektor dendrochronologie jako jsou například vady či špatně rozeznatelné letokruhy.
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Use of nanofluidic mixing for preparation of liposome carriers stained by gadolinium for contrast imaging by magnetic resonance (MRI)
Velínská, Kamila ; Mašek,, Josef (referee) ; Turánek, Jaroslav (advisor)
This diploma thesis focuses on the preparation of the liposomes, containing lipids with gadolinium, which are used for a contrast magnetic resonance imaging. The liposomes were prepared by the lipid film hydration followed by an extrusion and also by a new nanofluid mixing method on the NanoAssemblr Benchtop. The preparation technology has been optimized for parameters such as the composition of lipids, the flow rate ratio and total flow rate. The method of modification of the liposomes surface by gadolinium complexes has been developed. This method is using a conjugation reaction between the lipids containing cyanuric acid and Gd-DOTA. Prepared Gd-liposomes, which contain gadolinium, were complexly defined by the characterization techniques of DLS and NTA. The morphology of liposomes was observed by TEM and cryo-TEM. Methods for the determination of phospholipid content (Stewart test) and residual water in the lyophylisates of liposomes (Karl-Fischer titration) were used. Gadolinium in liposomal preparations was determined by ICP-OES. Using MR, the concept of gadolinium liposomes was verified and designed for MRI imaging of thrombi. The concept describing the mechanism of liposomes formation based on the experimentally proven existence of a phospholipid bilayer fragment has been developed. This concept is based on the experimentally proven existence of a phospholipid bilayer fragment.
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Wavelet analysis and enhancement of MR tomography and ultrasound images
Matoušek, Luděk ; Bartušek, Karel (referee) ; Smékal, Zdeněk (advisor)
Tomographic MR (Magnetic Resonance) and sonographic biosignal processing are important non-invasive diagnostic methods used in a medicine. A noise added into processed data by an amplifier of tomograph receiving part and by circuits of sonograph is resulting in a body organ diagnosis degradation. Image data are stored in a standardized DICOM medical file format. Methods using wavelet analysis for noise suppression in image data have been designed and their comparation with classical methods has been made in this work. The MATLAB was utilized for data processing and data rewriting back to the DICOM format.
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Segmentation of the basic parts of human brain in MR data
Klásek, Pavel ; Jiřík, Radovan (referee) ; Malínský, Miloš (advisor)
This work describes segmentation methods used in image data processing, from which there are selected and implemented suitable methods for solving the assignment of segmentation parts of human brain – region growing and watershed algorithm. Segmentation techniques are realized on real data sources. Final segmentation results are presented, compared and evaluated accordig to the advanced software FreeSurfer segmentation results. In addition there is a list of available software that can be applied for the purpose of neurological image segmentation.
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Modeling and Signal Processing in Dynamic Contrast Enhanced Magnetic Resonance Imaging
Kratochvíla, Jiří ; Šroubek,, Filip (referee) ; Tintěra,, Jaroslav (referee) ; Jiřík, Radovan (advisor)
The theoretical part of this work describes perfusion analysis of dynamic contrast enhanced magnetic resonance imaging from data acquisition to estimation of perfusion parameters. The main application fields are oncology, cardiology and neurology. The thesis is focused on quantitative perfusion analysis, specifically it contributes to solving of the the main challenge of this method – correct estimation of the contrast-agent concentration sequence in the arterial input of the region of interest (arterial input function). The goals of the thesis are stated based on literature review and on the expertise of our group. Blind deconvolution is selected as the method of choice. In the practical part of this thesis, a new method for arterial input function identification based on blind deconvolution is proposed. The method is designed for both preclinical and clinical applications. It was validated on synthetic, preclinical and clinical data. Furthermore, possibilities of the longer temporal sampling provided by blind deconvolution were analyzed. This can be used for improved spatial resolution and possibly for higher SNR. For easier deployment of the proposed methods into clinical and preclinical use, a software tool for perfusion data processing was designed.
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Measurement and processing of diffusion data from magnetic resonance
Vankó, Bence ; Jiřík, Radovan (referee) ; Kolářová, Jana (advisor)
This bachelor thesis deals with DTI examination. The diffusion tensor model of magnetic resonance imaging is a modern diagnostic method mainly used to visualize the spatial relationship of a particular neuronal pathway of the brain. The work is divided into three main parts. The first part contains the theoretical introduction to MRI, DTI and literary research from individual scientific articles dealing with DTI experiments. The second part of the thesis deals with the search of electronic articles to choose the right acquisition. Based on the articles being studied, parameters were selected and polished during the measuring of the phantom. In the third part, the measurements are done on the basis of the resulting acquisition protocol and the data is processed in various software.
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