Magnetic resonance imaging (MRI) is an imaging technique that is used in hospitals worldwide. The images are acquired through the use of an MRI scanner and the clinical information is provided through the image contrast, which is based on the magnetic properties in biological tissue. By altering the scanner settings, images with different contrast properties can be obtained. Conventional MRI is a qualitative imaging technique and no absolute measurements are performed. At Center for Medical Imaging and Visualization (CMIV) researchers are developing a new MRI technique named synthetic MRI (SyMRI). SyMRI is based on quantitative measurements of data and absolute values of the magnetic properties of the biological tissue can be obtained. The purpose of this master thesis has been to take the development of SyMRI a step further by developing and implementing a visualization studio for SyMRI imaging of the human brain. The software, SyMRI Brain Studio, is intended to be used in clinical routine. Input from radiologists was used to evaluate the imaging technique and the software. Additionally, the requirements of the radiologists were converted into technical specifications for the imaging technique and SyMRI Brain Studio. Additionally, validation of the potential in terms of replacing conventional MRI with SyMRI Brain Studio was performed. The work resulted in visualization software that provides a solid formation for the future development of SyMRI Brain Studio into a clinical tool that can be used for validation and research purposes. A list of suggestions for the future developments is also presented. Future clinical evaluation, technical improvements and research are required in order to estimate the potential of SyMRI and to introduce the technique as a generally used clinical tool.

Approved for public release; distribution is unlimited / The connection between eye disease and diabetes is proven and is no longer a point of conjecture. In focusing attention on the retina, profound inroads have been made in the fight against this dreaded disorder of the blood. By carefully imaging the blood vessels in the eye, medical professionals can make accurate diagnoses based upon the changes and abnormalities observed. In addition, because the vasculature in the retina is extremely sensitive to fluctuations in normal bodily processes, often the first indication of diabetes and many other diseases manifest themselves here and are found during routine eye examinations. This thesis will explore the possibilities of a new method of retinal imaging by the blending and application of existing technologies. With the use of an automated, infrared-based imaging system, problems related to human error and the limitations of existing methods can be readily resolved and the groundwork can be laid for a new standard of accuracy in retinal imaging. Most importantly, it will automate the entire procedure providing medical specialists heretofore unavailable accuracy in their diagnoses. / http://archive.org/details/functionalspecif00domb / Lieutenant, United States Navy

L’imagerie in vivo du petit animal est de plus en plus utilisée en pharmacologie pour identifier et caractériser l’activité de nouveaux agents anticancéreux.La première partie de ma thèse a consisté à développer des outils pour améliorer la quantification enbioluminescence. Une méthode, basée sur les caractéristiques spectrales des photons émis, a été établie pour corriger l’absorption tissulaire. La seconde, faisant appel aux méthodes de restauration d’images, avait pour but de corriger la diffusion pour augmenter la résolution. Dans un second temps, j’ai mis en place des modèles in vivo de tumeurs expérimentales bioluminescentes (un glioblastome intracérébral, un lymphome anaplasique à grandes cellules et un neuroblastome métastatique) en utilisant les méthodes d’imagerie décrites précédemment. Ces études ont permis d’étendre la caractérisation de l’activité préclinique d’un nouvel agent anticancéreux. L’objectif de la dernière partie de mon travail était de développer des sondes d’imagerie. La première sonde, un anticorps monoclonal anti-CD45 marqué avec un fluorochrome a permis la détection de cellules leucémiques humaines implantées chez la souris en utilisant l’imagerie de fluorescence. La seconde a été développée pour prédire l’entrée d’un agent anticancéreux, un conjugué spermine-podophyllotoxin, dans les cellules tumorales via les transporteurs des polyamines. La sonde synthétisée est une spermine à laquelle un groupement HYNIC a été ajouté afin de pouvoir lier un radioisotope : le Technétium 99m et ainsi réaliser un examen scintigraphique. Les résultats ont démontré la faisabilité d’une application préclinique de cette sonde. Ainsi à l’issu de cette thèse, les méthodes de traitement des signaux de bioluminescence développées sont disponibles pour améliorer l’application de l’imagerie optique en pharmacologie. Bien sûr des études supplémentaires sont encore nécessaires pour définir précisément dans quel contexte ces corrections seront les plus appropriées. / Small animal imaging is more and more used in pharmacology to identify and to characterize the activities of new antitumor agents. The first part of my thesis consisted in the development of new tools to improve the quantitation in bioluminescence. A method, based on spectral characteristics of emitted photons, has been established to correct tissue absorption. The second, using methods of image restoration had for objective to correct tissue scattering to increase the resolution. In a second part, I developed in vivo models of bioluminescent tumors (intracranial glioblastoma, a large cell anaplastic lymphoma and a metastatic neuroblastoma) using the imaging methods described previously. These studies allowed the characterization of the activity of a new antitumor agent. The aim of the last part was to develop imaging probes. The first, a monoclonal antibody antiCD45 labeled with a fluorochrome allowed the detection of human leukemic cells implanted in the mice using fluorescence imaging. The second was developed to predict the uptake of a antitumor agent, a spermine-podophyllotoxin conjugate, in tumor cells via the polyamine transport system. The synthesized probe is a spermine conjugated to a HYNIC group to bind a radioisotope: the Technetium 99m and to realize a scintigraphic examination. The results showed the feasibility of a preclinical use of this probe. So, at this end of this thesis, the developed methods of bioluminescent signal processing are available to improve the use of optical imaging in pharmacology. Of course, supplementary studies are necessary to define precisely in which context these corrections will be the most appropriate.

Biomedical imaging at microwave frequencies has shown potential for breast cancer detection and monitoring. The advantages of microwave imaging over current imaging techniques are that it is relatively inexpensive, and uses low-energy, non-ionizing radiation. It also provides a quantitative measurement of the dielectric properties of tissues, which offers the ability to characterize tissue types. Microwave imaging also comes with significant drawbacks. The resolution is poor compared to other imaging modalities, which presents challenges when trying to resolve fine structures. It is also not very sensitive to low contrast objects, and the accuracy of recovered tissue properties can be poor. This thesis shows that the use of prior information in microwave imaging inversion algorithms greatly improves the resulting images by minimizing mathematical difficulties in reconstruction that are due to the ill-posed nature of the inverse problem. The focus of this work is to explore novel methods to obtain and use prior information in the microwave breast imaging problem. We make use of finite element contrast source inversion (FEM-CSI) software formulated in two and three dimensions (2D, 3D). This software has the ability to incorporate prior information as an inhomogeneous numerical background medium. We motivate the usefulness of prior information by developing a simulated annealing technique that segments experimental human forearm images into tissue regions. Tissue types are identified and the resulting map of dielectric properties is used as prior information for the 2D FEM-CSI code. This results in improvements to the reconstructions, demonstrating the ability of prior information to improve breast images. We develop a combined microwave tomography/radar algorithm, and demonstrate that it is able to reconstruct images of superior quality, compared to either technique used alone. The algorithm is applied to data from phantoms containing tumours of decreasing size and can accurately monitor the changes. The combined algorithm is shown to be robust to the choice of immersion medium. This property allows us to design an immersion medium-independent algorithm, in which a numerical background can be used to reduce the contrast. We also develop a novel march-on-background technique that reconstructs high quality images using data collected in multiple immersion media. / October 2016

Approved for public release; distribution is unlimited. / Inverse Synthetic Aperture Radar (ISAR) provides full range detection and classification of sea and air based targets through two-dimensional range-Doppler imaging. The Naval Postgraduate School has developed a custom integrated circuit that can simulate false ISAR images in order to fool enemy ISAR platforms. To validate specific hardware choices within this design, this thesis explores the effect on image quality of an overflow occurring within the final 16-bit summation adder of this circuit. Three solutions to the problem of overflows are presented and analyzed. The logical extension of ISAR development, that of three-dimensional target imaging, is next presented through the discussion of 3D monopulse radar, 3D interferometric ISAR, and a 3D, three receiver ISAR. The relative strengths of each approach are compared, along with both MATLAB and X3D software models created for one specific 3D ISAR implementation. Through the superposition of 2D ISAR images it is shown how 3D ISAR images may be created. Moreover, emphasis is placed on using this knowledge to both enhance current 2D ISAR techniques and to modify the false-target chip to handle 3D ISAR return signals. The thesis concludes with a study of Non-Uniform Rational B-Splines, through which the X3D software model was created. / Ensign, United States Naval Reserve

A dissertation submitted to the Faculty of Science, University of the Witwatersrand, Johannesburg, in fulfilment of requirements for the degree of Master of Science. Johannesburg, July 14, 2015. / Hyperspectral images nd application in many areas of modern society, we use them for land surveying, core sample analysis, in the conservation and forestry industries and many more. A major problem in hyperspectral images is how to deal with noise. Many methods that analyse hyperspectral images either need clean images or accurate estimations of the noise statistics in the images. The goal of this dissertation is to present and compare methods for statistic estimation and noise removal. We use an arti cial hyperspectral image to study some existing methods and develop some new ones based on existing methods, speci cally the BM3D algorithm. We test methods that estimate the level of the noise present in an image, methods that estimate the structure of the noise and methods that remove noise. We analyse all the methods under an additive noise model and consider spectrally correlated and uncorrelated noise. Within our investigations we investigate di erent types of correlation. We will show the strengths that the various methods have and establish a way to approach treating a hyperspectral image with no information beyond the image itself. Using our observations and insights from the experiments on the arti cial data we analyse some radiance data from the AVIRIS instrument. We show that the additive signal independent part of the noise is small but not negligible. We also show some evidence for the structure of the noise in the AVIRIS instrument.

University of Macau / Faculty of Health Sciences

Three dimensional (3D) ultrasound has become an increasingly popular medical imaging tool over the last decade. It offers significant advantages over Two Dimensional (2D) ultrasound, such as improved accuracy, the ability to display image planes that are physically impossible with 2D ultrasound, and reduced dependence on the skill of the sonographer. Among 3D medical imaging techniques, ultrasound is the only one portable enough to be used by first responders, on the battlefield, and in rural areas. There are three basic methods of acquiring 3D ultrasound images. In the first method, a 2D array transducer is used to capture a 3D volume directly, using electronic beam steering. This method is mainly used for echocardiography. In the second method, a linear array transducer is mechanically actuated, giving a slower and less expensive alternative to the 2D array. The third method uses a linear array transducer that is moved by hand. This method is known as freehand 3D ultrasound. Whether using a 2D array or a mechanically actuated linear array transducer, the position and orientation of each image is known ahead of time. This is not the case for freehand scanning. To reconstruct a 3D volume from a series of 2D ultrasound images, assumptions must be made about the position and orientation of each image, or a mechanism for detecting the position and orientation of each image must be employed. The most widely used method for freehand 3D imaging relies on the assumption that the probe moves along a straight path with constant orientation and speed. This method requires considerable skill on the part of the sonographer. Another technique uses features within the images themselves to form an estimate of each image's relative location. However, these techniques are not well accepted for diagnostic use because they are not always reliable. The final method for acquiring position and orientation information is to use a six Degree-of-Freedom (6 DoF) tracking system. Commercially available 6 DoF tracking systems use magnetic fields, ultrasonic ranging, or optical tracking to measure the position and orientation of a target. Although accurate, all of these systems have fundamental limitations in that they are relatively expensive and they all require sensors or transmitters to be placed in fixed locations to provide a fixed frame of reference. The goal of the work presented here is to create a probe tracking system for freehand 3D ultrasound that does not rely on any fixed frame of reference. This system tracks the ultrasound probe using only sensors integrated into the probe itself. The advantages of such a system are that it requires no setup before it can be used, it is more portable because no extra equipment is required, it is immune from environmental interference, and it is less expensive than external tracking systems. An ideal tracking system for freehand 3D ultrasound would track in all 6 DoF. However, current sensor technology limits this system to five. Linear transducer motion along the skin surface is tracked optically and transducer orientation is tracked using MEMS gyroscopes. An optical tracking system was developed around an optical mouse sensor to provide linear position information by tracking the skin surface. Two versions were evaluated. One included an optical fiber bundle and the other did not. The purpose of the optical fiber is to allow the system to integrate more easily into existing probes by allowing the sensor and electronics to be mounted away from the scanning end of the probe. Each version was optimized to track features on the skin surface while providing adequate Depth Of Field (DOF) to accept variation in the height of the skin surface. Orientation information is acquired using a 3 axis MEMS gyroscope. The sensor was thoroughly characterized to quantify performance in terms of accuracy and drift. This data provided a basis for estimating the achievable 3D reconstruction accuracy of the complete system. Electrical and mechanical components were designed to attach the sensor to the ultrasound probe in such a way as to simulate its being embedded in the probe itself. An embedded system was developed to perform the processing necessary to translate the sensor data into probe position and orientation estimates in real time. The system utilizes a Microblaze soft core microprocessor and a set of peripheral devices implemented in a Xilinx Spartan 3E field programmable gate array. The Xilinx Microkernel real time operating system performs essential system management tasks and provides a stable software platform for implementation of the inertial tracking algorithm. Stradwin 3D ultrasound software was used to provide a user interface and perform the actual 3D volume reconstruction. Stradwin retrieves 2D ultrasound images from the Terason t3000 portable ultrasound system and communicates with the tracking system to gather position and orientation data. The 3D reconstruction is generated and displayed on the screen of the PC in real time. Stradwin also provides essential system features such as storage and retrieval of data, 3D data interaction, reslicing, manual 3D segmentation, and volume calculation for segmented regions. The 3D reconstruction performance of the system was evaluated by freehand scanning a cylindrical inclusion in a CIRS model 044 ultrasound phantom. Five different motion profiles were used and each profile was repeated 10 times. This entire test regimen was performed twice, once with the optical tracking system using the optical fiber bundle, and once with the optical tracking system without the optical fiber bundle. 3D reconstructions were performed with and without the position and orientation data to provide a basis for comparison. Volume error and surface error were used as the performance metrics. Volume error ranged from 1.3% to 5.3% with tracking information versus 15.6% to 21.9% without for the version of the system without the optical fiber bundle. Volume error ranged from 3.7% to 7.6% with tracking information versus 8.7% to 13.7% without for the version of the system with the optical fiber bundle. Surface error ranged from 0.319 mm RMS to 0.462 mm RMS with tracking information versus 0.678 mm RMS to 1.261 mm RMS without for the version of the system without the optical fiber bundle. Surface error ranged from 0.326 mm RMS to 0.774 mm RMS with tracking information versus 0.538 mm RMS to 1.657 mm RMS without for the version of the system with the optical fiber bundle. The prototype tracking system successfully demonstrated that accurate 3D ultrasound volumes can be generated from 2D freehand data using only sensors integrated into the ultrasound probe. One serious shortcoming of this system is that it only tracks 5 of the 6 degrees of freedom required to perform complete 3D reconstructions. The optical system provides information about linear movement but because it tracks a surface, it cannot measure vertical displacement. Overcoming this limitation is the most obvious candidate for future research using this system. The overall tracking platform, meaning the embedded tracking computer and the PC software, developed and integrated in this work, is ready to take advantage of vertical displacement data, should a method be developed for sensing it.

OBJECTIVE: Determine if complex singular value decomposition (cSVD) used as preprocessing in the maximum slope algorithm reduces image noise of resultant physiologic parametric images. Noise will be decreased in the parametric maps of cerebral blood flow (CBF), cerebral blood volume (CBV) as compared to the same algorithm and data set with no cSVD applied. MATERIALS AND METHODS: A set of 10 patients (n=15) underwent a total combined 15 CT perfusion studies upon presenting with stroke symptoms. It was determined these patients suffered from occlusions resulting in a prolonged arrival time of blood to the brain. DICOM data files of these patients scans were selected based on this increased arrival delay. We compared the output of estimation calculations for cerebral blood flow (CBF), and cerebral blood volume (CBV), using preprocessing cSVD against the same scan data with no preprocessing cSVD. Image noise was assessed through the calculation of the standard deviation within specific regions of interest copied to specific areas of grey and white matter as well as CSF space. A decrease in the standard deviation values will indicate improvement in the noise level of the resultant images.. Results for the mean value within the regions of interest are expected to be similar between the groups calculated using cSVD and those calculated under the standard method. This will indicate the presence of minimal bias. RESULTS: Between groups of the standard processing method and the cSVD method standard deviation (SD) reductions were seen in both CBF and CBV values across all three ROIs. In grey matter measures of CBV, SD was reduced an average of 0.0034 mL/100g while measures of CBF saw SD reduced by an average of 0.073 mL/100g/min. In samples of white matter, standard deviations of CBV values were reduced on average by 0.0041mL/100g while CBF SD's were reduced by 0.073 mL/100g/min. CSF ROIs in CBV calculations saw SD reductions averaging 0.0047 mL/100g and reductions of 0.074 mL/100g/min in measures of CBF. Bias within CBV calculations was at most minimal as determined by no significant changes in mean calculated values. Calculations of CBF saw large downward bias in the mean values. CONCLUSIONS: The application of the cSVD method to preprocessing of CT perfusion imaging studies produces an effective method of noise reduction. In calculations of CBV, cSVD noise reduction results in overall improvement. In calculations of CBF, cSVD, while effective in noise reduction, caused mean values to be statistically lower than the standard method. It should be noted that there is currently no evaluation of which values can be considered more accurate physiologically. Simulations of the effect of noise on CBF showed a positive correlation suggesting that the CBF algorithm itself is sensitive to the level of noise.

Recent research had shown a correlation between aging and decreasing Gamma-aminobutyric acid (GABA) the primary inhibitory neurotransmitter in the brain. However, how GABA level varies with age in the medial portion of the brain has not yet been studied. The purpose of this study was to investigate the GABA level variation with age focusing on posterior cingulate cortex, which is the 'core hub' of the Default mode network. In this study, 14 monkeys between 4 and 21 years were recruited and MEGA-PRESS to measure GABA level in order to explorea potential link between aging and GABA. Our results showed that a correlation between age and GABA+/Creatine ratio was at the edge of significance (r= -0.523, p=0.081). There was also a near-significant trend between grey matter/ white matter ratio and GABA+/Creatine ratio (r = -0.518, p=0.0848). Meanwhile, the correlation between age and grey matter showed no significance (r= -0.028, p = 0.93). Therefore, age and grey matter/ white matter ratio accounts for different part of R-squared as independent variables for predicting GABA levels. These finding suggest that there the internal neurochemical variation of GABA levels in the nonhuman primate is associated with normal aging and brain structural decline.