Biomedical Engineering and Bioengineering Commons^™

Cdi-Type Ii: Collaborative Research: Cyber Enhancement Of Spatial Cognition For The Visually Impaired, Nicholas Giudice

University of Maine Office of Research Administration: Grant Reports

Wayfinding is an essential capability for any person who wishes to have an independent life-style. It requires successful execution of several tasks including navigation and object and place recognition, all of which necessitate accurate assessment of the surrounding environment. For a visually-impaired person these tasks may be exceedingly difficult to accomplish and there are risks associated with failure in any of these. Guide dogs and white canes are widely used for the purpose of navigation and environment sensing, respectively. The former, however, has costly and often prohibitive training requirements, while the latter can only provide cues about obstacles in one's …

Reconstruction Of Patient-Specific Bone Models From X-Ray Radiography, Hatem Amin Abdel Fattah El Dakhakhni

Doctoral Dissertations

The availability of a patient‐specific bone model has become an increasingly invaluable addition to orthopedic case evaluation and planning [1]. Utilized within a wide range of specialized visualization and analysis tools, such models provide unprecedented wealth of bone shape information previously unattainable using traditional radiographic imaging [2]. In this work, a novel bone reconstruction method from two or more x‐ray images is described. This method is superior to previous attempts in terms of accuracy and repeatability. The new technique accurately models the radiological scene in a way that eliminates the need for expensive multi‐planar radiographic imaging systems. It is also …

Image Registration Of Ex-Vivo Mri To Sparsely Sectioned Histology Of Hippocampal And Neocortical Temporal Lobe Specimens., Maged Goubran, Cathie Crukley, Sandrine De Ribaupierre, Terence M Peters, Ali R Khan

Robarts Imaging Publications

Intractable or drug-resistant epilepsy occurs in up to 30% of epilepsy patients, with many of these patients undergoing surgical excision of the affected brain region to achieve seizure control. Recent magnetic resonance imaging (MRI) sequences and analysis techniques have the potential to detect abnormalities not identified with diagnostic MRI protocols. Prospective studies involving pre-operative imaging and collection of surgically-resected tissue provide a unique opportunity for verification and tuning of these image analysis techniques, since direct comparison can be made against histopathology, and can lead to better prediction of surgical outcomes and potentially less invasive procedures. To carry out MRI and …

Pre-Amplifiers For A 15-Tesla Magnetic Resonance Imager, Chin-Leong Lim, Peter Serano, Jerome L. Ackerman

Chin-Leong Lim

High-field magnetic resonance imagers (MRI) give better signal-to-noise ratio (SNR) and image contrast. However clinical MRIs are currently limited to 3 Tesla (T) magnetic field strength. To create an uncommon 15 T scanner for research use, we evaluated several low-cost, intended for wireless communication, GaAs enhancement-mode pseudomorphic high electron mobility transistors (ePHEMT) in the critical preamplifier slot. This paper reports the experimental results that were obtained at both module and system levels. When evaluated in our prototype 15 T scanner front-end’s preamplifier slot, the candidate devices’ sub 1dB noise figures enabled image SNR ~ 110 in a water phantom (test …

Dopaminergic Modulation Of Memory And Affective Processing In Parkinson Depression, Lee X. Blonder, John T. Slevin, Richard J. Kryscio, Catherine A. Martin, Anders H. Andersen, Charles D Smith, Frederick A. Schmitt

Magnetic Resonance Imaging and Spectroscopy Center Faculty Publications

Depression is common in Parkinson's disease and is associated with cognitive impairment. Dopaminergic medications are effective in treating the motor symptoms of Parkinson's disease; however, little is known regarding the effects of dopaminergic pharmacotherapy on cognitive function in depressed Parkinson patients. This study examines the neuropsychological effects of dopaminergic pharmacotherapy in Parkinsonian depression. We compared cognitive function in depressed and non-depressed Parkinson patients at two time-points: following overnight withdrawal and after the usual morning regimen of dopaminergic medications. A total of 28 non-demented, right-handed patients with mild to moderate idiopathic Parkinson's disease participated. Ten of these patients were depressed according …

Web-Based Simulation And Training Environment For Laparoscopic Camera Calibration, Kartik Thakore

Electronic Thesis and Dissertation Repository

Endoscopic cameras are increasingly employed in image-guidance procedures, where the video images must be registered to data from other modalities. However, such cameras are susceptible to distortions, requiring calibration before images can be used for registration, tracking and 3D reconstruction. Camera calibration is learned in a laboratory setting, where configuring and adjusting the physical setup is tedious and not necessarily conducive to learning. A centralized resource that utilizes 3D interactive components needs to be available for training on camera calibration. In this project, a web-based training environment for camera calibration is implemented called SimCAM. SimCAM was developed using the Web …

In Vivo Flow Measurements Of Murine Renal Arteries And Veins With High Frequency Ultrasound, Amy E. Bogucki, Hilary D. Schroeder, Alexa A. Yrineo, Craig J. Goergen

The Summer Undergraduate Research Fellowship (SURF) Symposium

The number of glomeruli in the kidneys has been shown to have an effect on the decline in renal function over time (Brenner, Garcia, Anderson 1988). Furthermore, flow in the renal arteries and veins may depend on the number of glomeruli in the kidney. Consistent in vivo measurements of volumetric flow in the renal arteries and veins are difficult to obtain. Thus, the purpose of this study was to develop non-invasive imaging techniques capable of estimating arterial and venous flow to kidneys. A high-frequency small animal ultrasound system was chosen based upon its excellent spatial and temporal resolution when imaging …

In Vivo Method For Labeling And Tracking Cells In The Mammalian Limb Bud, James T. Mccarthy, Andrew Schilb, Sarah Calve

The Summer Undergraduate Research Fellowship (SURF) Symposium

The extracellular matrix (ECM) is composed of many different proteins excreted by cells and is believed to play a very important role in development as well as regeneration and wound healing. In this research, a method to determine the ECM’s effect on the migration of muscle progenitor cells into the mammalian limb bud was investigated. It has traditionally been difficult to obtain in vivo images of the limb bud, due to the difficulty of maintaining embryos in culture and limitations of imaging techniques. In this study, we have worked on optimizing the culture conditions to allow growth of mouse embryos …

Visualization Of Complex Flow Patterns In Angiotensin Ii-Induced Dissecting Murine Abdominal Aortic Aneurysms With High Frequency Ultrasound, Hilary D. Schroeder, Alexa A. Yrineo, Amy E. Bogucki, Craig J. Goergen

The Summer Undergraduate Research Fellowship (SURF) Symposium

Abdominal aortic aneurysm (AAA) rupture is a common cause of mortality in the United States. Current treatments are only employed once the risk of rupture outweighs the risks associated with surgery. Murine models have been developed to characterize AAA pathogenesis in the hope that new treatments will be developed. For this study, angiotensin II (AngII) was infused subcutaneously into apolipoprotein E-deficient (ApoE^-/-) mice using an osmotic mini-pump over 28 days. ApoE^-/- mice (16-week-old, 3 females, 2 males) were imaged using a VisualSonics Vevo 2100 high frequency ultrasound before pump implantation and 3, 7, 14, 21, and 27 …

Development Of Non-Invasive In Vivo Ultrasound Imaging Techniques For Elastase-Induced Experimental Abdominal Aortic Aneurysms, Alexa A. Yrineo, Elizabeth A. Nunamaker, Hilary D. Schroeder, Amy E. Bogucki, Craig J. Goergen

The Summer Undergraduate Research Fellowship (SURF) Symposium

Abdominal aortic aneurysms (AAAs) are pathological dilations of the aorta which are associated with significant morbidity and mortality. The underlying mechanisms that cause this inflammatory disease are not fully understood and thus, are currently under investigation. In the hopes of preventing disease progression, rodent models that mimic the human condition have been developed to provide insight into the pathogenesis of AAAs. In this study, porcine pancreatic elastase (0.44 U; Sigma-Aldrich) was infused into the infrarenal aortas of male, Sprague Dawley rats to induce aneurysms. To perform the surgery, temporary ligatures were placed around proximal and distal sections of the abdominal …

Characterization Of Two-Dimensional Oculomotor Control During Goal-Directed Eye Movements In Humans, Vincent Dang

Master's Theses (2009 -)

Oculomotor control is a subset of sensorimotor control that allows humans to make extremely accurate eye movements for ADL. Impairments to oculomotor control can increase the impact of sensorimotor control deficits, especially in neurodegenerative diseases such as MS. Here, a two-dimensional computational control system of saccades and smooth-pursuit eye movements was compiled from literature to systematically characterize oculomotor control in eight visually-healthy humans as a precursor to studying the relationship between oculomotor and sensorimotor control in patient populations. Subjects visually tracked a single dot on a 41 x 30.5 cm monitor in a dark room while eye positions were recorded …

Fabricating Cost-Effective Nanostructures For Biomedical Applications, Erden Ertorer

Electronic Thesis and Dissertation Repository

In this thesis we described inexpensive alternatives to fabricate nanostructures on planar substrates and provided example applications to discuss the efficiency of fabricated nanostructures.

The first method we described is forming large area systematically changing multi-shape nanoscale structures on a chip by laser interference lithography. We analyzed the fabricated structures at different substrate positions with respect to exposure time, exposure angle and associated light intensity profile. We presented experimental details related to the fabrication of symmetric and biaxial periodic nanostructures on photoresist, silicon surfaces, and ion-milled glass substrates. Behavior of osteoblasts and osteoclasts on the nanostructures was investigated. These results …

Automated Segmentation Of Left And Right Ventricles In Mri And Classification Of The Myocarfium Abnormalities, Cyrus (Mohammad Saleh) Nambakhsh

Electronic Thesis and Dissertation Repository

A fundamental step in diagnosis of cardiovascular diseases, automated left and right ventricle (LV and RV) segmentation in cardiac magnetic resonance images (MRI) is still acknowledged to be a difficult problem. Although algorithms for LV segmentation do exist, they require either extensive training or intensive user inputs. RV segmentation in MRI has yet to be solved and is still acknowledged a completely unsolved problem because its shape is not symmetric and circular, its deformations are complex and varies extensively over the cardiac phases, and it includes papillary muscles. In this thesis, I investigate fast detection of the LV endo- and …

Vascular Segmentation Algorithms For Generating 3d Atherosclerotic Measurements, Eranga Ukwatta

Electronic Thesis and Dissertation Repository

Atherosclerosis manifests as plaques within large arteries of the body and remains as a leading cause of mortality and morbidity in the world. Major cardiovascular events may occur in patients without known preexisting symptoms, thus it is important to monitor progression and regression of the plaque burden in the arteries for evaluating patient's response to therapy. In this dissertation, our main focus is quantification of plaque burden from the carotid and femoral arteries, which are major sites for plaque formation, and are straight forward to image noninvasively due to their superficial location. Recently, 3D measurements of plaque burden have shown …

Numerical Investigation Of The Interdependence Between Humeral Implant Position And Bone Removal Amount For Total Elbow Arthroplasty, Alexander J. Heroux

Electronic Thesis and Dissertation Repository

Total elbow arthroplasty is a surgical procedure used to replace an afflicted articulation with prosthetic joint components. A good alignment between the native and prosthetic flexion-extension axes of the elbow is required to preserve its functionality. However, this is often unobtainable because of the mismatch between humeral canal and implant stem geometries. To correct this, surgeons are often required to intraoperatively make error-prone decisions when determining an appropriate implant posture that minimizes the amount of cortical bone to be removed while maintaining the alignment between the two flexion-extension axes. To address this issue, the present study has developed computational tools …

Piv-Based Investigation Of Hemodynamic Factors In Diseased Carotid Artery Bifurcations With Varying Plaque Geometries, Sarah Kefayati

Electronic Thesis and Dissertation Repository

Ischemic stroke is often a consequence of complications due to clot formation (i.e. thrombosis) at the site of an atherosclerotic plaque developed in the internal carotid artery. Hemodynamic factors, such as shear-stress forces and flow disturbances, can facilitate the key mechanisms of thrombosis. Atherosclerotic plaques can differ in the severity of stenosis (narrowing), in eccentricity (symmetry), as well as inclusion of ulceration (wall roughness). Therefore, in terms of clinical significance, it is important to investigate how the local hemodynamics of the carotid artery is mediated by the geometry of plaque. Knowledge of thrombosis-associated hemodynamics may provide a basis to introduce …

Spectral Discrimination Of Breast Pathologies In Situ Using Spatial Frequency Domain Imaging, Ashley M. Laughney, Venkataramanan Krishnaswamy, Elizabeth J. Rizzo, Mary C. Schwab, Richard J. Barth, David J. Cuccia, Bruce J. Tromberg, Keith D. Paulsen, Brian W. Pogue, Wendy A. Wells

Dartmouth Scholarship

Introduction: Nationally, 25% to 50% of patients undergoing lumpectomy for local management of breast cancer require a secondary excision because of the persistence of residual tumor. Intraoperative assessment of specimen margins by frozen-section analysis is not widely adopted in breast-conserving surgery. Here, a new approach to wide-field optical imaging of breast pathology in situ was tested to determine whether the system could accurately discriminate cancer from benign tissues before routine pathological processing.

Reproducibility Of Hyperpolarized Xenon-129 Magnetic Resonance Imaging, Nikhil Kanhere

Electronic Thesis and Dissertation Repository

Spirometry and plethysmography provide gold standard measurements of obstructive lung disease, although these are global measurements of lung function made at the mouth, of a highly regionally heterogeneous disease. Hyperpolarized ¹²⁹Xe magnetic resonance imaging (MRI) is a non-invasive, non-radiation-based imaging tool for visualizing regional lung structure and function. However, the reproducibility of ¹²⁹Xe MRI measurements has not yet been studied or determined. Hence, in this thesis, we evaluated the reproducibility of ¹²⁹Xe MRI using quantitative measurements such as ventilation defect percent (VDP). We showed that ¹²⁹Xe VDP had high intra-observer and inter-observer reproducibility for repeated scans …

An Fmri Study On Supra-Spinal Contributions To Upper And Lower Limb Motor Control, Shancheng Bao

Master's Theses (2009 -)

The differences in the neural mechanisms contributing to upper and lower extremity movement have not been fully elucidated, and this might be a factor that leads to the ineffectiveness of rehabilitation techniques for most stroke survivors. It is unclear whether therapies designed for upper extremities should also be used for the lower extremities, and vice versa. In this study, fMRI was used to examine the supraspinal control of UE and LE movement in both neurologically intact individuals and people with post-stroke hemiparesis. We compared the location, volume, and intensity of brain activity associated with upper and lower extremity pedaling and …

Protein Loop Length Estimation From Medium Resolution Cryoem Images, Andrew R. Mcknight

Computer Science Theses & Dissertations

In the post-genomic era, proteomics research presents a new frontier in life science. Proteins play roles in virtually every biological process, and understanding their atomic structures is the key to unraveling how they carry out their work. Compared to the over half million protein sequences in UniProt, only around 25,000 unique sequences have been atomically modeled and deposited to PDB (Protein Databank). Cryoelectron Microscopy (cryoEM) is an important biophysical technique that produces 3D subnanometer resolution images of molecules not amenable to past approaches like x-ray crystallography or nuclear magnetic resonance. De novo modeling is becoming a promising approach to derive …

Funtional Near Infrared Spectroscopy Study Of Language, Joint Attention And Motor Skills, Ujwal Chaudhary

FIU Electronic Theses and Dissertations

Near infrared spectroscopy (NIRS) is an emerging non-invasive optical neuro imaging technique that monitors the hemodynamic response to brain activation with ms-scale temporal resolution and sub-cm spatial resolution. The overall goal of my dissertation was to develop and apply NIRS towards investigation of neurological response to language, joint attention and planning and execution of motor skills in healthy adults. Language studies were performed to investigate the hemodynamic response, synchrony and dominance feature of the frontal and fronto-temporal cortex of healthy adults in response to language reception and expression. The mathematical model developed based on granger causality explicated the directional flow …

Fluorescence Characterization Of Quantum Dots For Use As Biomarkers, Logan M. Grimes

Materials Engineering

Fluorescence profiles of quantum dots (QDs) were characterized to select the ideal QDs for encapsulation in phospholipids for use as biomarkers to selectively adhere to cancer cells. QDs were synthesized and extracted 0, 30, 60, and 90 seconds after precursor compounds were mixed. These extractions were isolated by extraction time. Portions from each vial were coated in a zinc sulfide shelling procedure, leaving at least half of the QD solution unshelled. These samples were characterized over four days to monitor fluctuations in fluorescence. This was done utilizing an Ocean Optics spectrometer in conjunction with Spectra Suite software. The central wavelength, …

Tracking Points On A Pacing Lead In A Beating Heart, Avinash Ramesh Varma

Master's Theses

Heart failure is a common condition during which the pumping action of the heart is affected because the heart does not contract or relax properly. Heart failure affects about 5 million Americans, with 550,000 new cases diagnosed each year. Cardiac resynchronization therapy (CRT) is used to treat symptoms and other complications associated with a heart failure. While performing CRT, Implantation of a pacing lead in the left ventricle of the heart is a very challenging surgical procedure performed with fluoroscopy. The target location is often difficult to reach through the tortuous coronary venous anatomy, which varies greatly among individuals. Placement …

Microcapsule Containing Lactic Acid Bacteria For Treatment Of Peptic Ulcers, Brandon Jerome Hinkel

Master's Theses

Probiotics are marketed throughout the world to promote the health of the consumer by improving the microorganisms that normally occur in the intestinal tract (Tannock, 1997). It has also been suggested that probiotics can prevent pathogen infections by adhering to the intestinal mucosa (Lee, Lim, Teng, Ouwehand, Tuomola, & Salminen, 2000). While probiotics can be delivered to the infected areas in multiple fashions, microencapsulation is a newer form of delivering probiotics straight to the infected area. A whey protein microcapsule is thought to protect the probiotics from stomach acid and delivers the treatment to the affected area. To ensure this …

On The Development Of A Dynamic Contrast-Enhanced Near-Infrared Technique To Measure Cerebral Blood Flow In The Neurocritical Care Unit, Jonathan T. Elliott

Electronic Thesis and Dissertation Repository

A dynamic contrast-enhanced (DCE) near-infrared (NIR) method to measure cerebral blood flow (CBF) in the neurocritical care unit (NCU) is described. A primary concern in managing patients with acquired brain injury (ABI) is onset of delayed ischemic injury (DII) caused by complications during the days to weeks following the initial insult, resulting in reduced CBF and impaired oxygen delivery.

The development of a safe, portable, and quantitative DCE-NIR method for measuring CBF in NCU patients is addressed by focusing on four main areas: designing a clinically compatible instrument, developing an appropriate analytical framework, creating a relevant ABI animal model, and …

Biomedical Photoacoustic Imaging Using Gas-Coupled Laser Acoustic Detection, Jami L. Johnson

Student Research Initiative

Several detection methods have been explored for photoacoustic and ultrasound imaging of biological tissues. Piezoelectric transducers are commonly used, which require contact with the sample and have limiting bandwidth characteristics. Interferometry detection exhibits improved bandwidth characteristics and resolution, yet generally require complicated optics and the incorporation of a contacting reflective medium. Here, we report the use of a noncontact photoacoustic and laser-ultrasound imaging system that does not require the use of a reflective layer. A simple, robust technique known as gas-coupled laser acoustic detection is used, which has previously been applied to composite material evaluation. This technique has the potential …

Dynamic Dual-Tracer Mri-Guided Fluorescence Tomography To Quantify Receptor Density In Vivo, Scott C. Davis, Kimberley S. Samkoe, Kenneth M. Tichauer, Kristian J. Sexton, Jason R. Gunn, Sophie J. Deharvengt, Tayyaba Hasan, Brian W. Pogue

Dartmouth Scholarship

The up-regulation of cell surface receptors has become a central focus in personalized cancer treatment; however, because of the complex nature of contrast agent pharmacokinetics in tumor tissue, methods to quantify receptor binding in vivo remain elusive. Here, we present a dual-tracer optical technique for noninvasive estimation of specific receptor binding in cancer. A multispectral MRI-coupled fluorescence molecular tomography system was used to image the uptake kinetics of two fluorescent tracers injected simultaneously, one tracer targeted to the receptor of interest and the other tracer a nontargeted reference. These dynamic tracer data were then fit to a dual-tracer compartmental model …

Biomedical Photoacoustic Imaging Using Gas-Coupled Laser Acoustic Detection, Jami Johnson

Student Research Initiative

Several detection methods have been explored for photoacoustic and ultrasound imaging of biological tissues. Piezoelectric transducers are commonly used, which require contact with the sample to be imaged and have limiting bandwidth characteristics. Interferometry detection exhibits improved bandwidth characteristics and resolution, yet generally require complicated optics and the incorporation of a contacting reflective medium. In this paper, we report the use of a noncontact photoacoustic imaging system that does not require the use of a reflective layer. A simple, robust technique known as gas-coupled laser acoustic detection is used, which has previously been applied to evaluation of composite materials. This …

Study Of Immobilizing Cadmium Selenide Quantum Dots In Selected Polymers For Application In Peroxyoxalate Chemiluminescence Flow Injection Analysis, Christopher S. Moore

Electronic Theses and Dissertations

Two batches of CdSe QDs with different sizes were synthesized for immobilizing in polyisoprene (PI), polymethylmethacrylate (PMMA), and low-density polyethylene (LDPE). The combinations of QDs and polymer substrates were evaluated for their analytical fit-for-use in applicable immunoassays. Hydrogen peroxide standards were injected into the flow injection analyzer (FIA) constructed to simulate enzyme-generated hydrogen peroxide reacting with bis-(2,4,6-trichlorophenyl) oxalate.

Linear correlations between hydrogen peroxide and chemilumenscent intensities yielded regression values greater than 0.9750 for hydrogen peroxide concentrations between 1.0 x 10^-4 M and 1.0 x 10^-1 M. The developed technique’s LOD was approximately 10 ppm. Variability of the prepared …

A Gamos Plug-In For Geant4 Based Monte Carlo Simulation Of Radiation-Induced Light Transport In Biological Media, Adam K. Glaser, Stephen C. Kanick, Rongxiao Zhang, Pedro Arce, Brian W. Pogue

Dartmouth Scholarship

We describe a tissue optics plug-in that interfaces with the GEANT4/GAMOS Monte Carlo (MC) architecture, providing a means of simulating radiation-induced light transport in biological media for the first time. Specifically, we focus on the simulation of light transport due to the Čerenkov effect (light emission from charged particle's traveling faster than the local speed of light in a given medium), a phenomenon which requires accurate modeling of both the high energy particle and subsequent optical photon transport, a dynamic coupled process that is not well-described by any current MC framework. The results of validation simulations show excellent agreement with …