Biomedical Engineering and Bioengineering Commons^™

The Design And Validation Of A Computational Rigid Body Model For Study Of The Radial Head, Cassandra Woodcock

Theses and Dissertations

Rigid body modeling has historically been used to study various features of the elbow joint including both physical and computational models. Computational modeling provides an inexpensive, easily customizable, and effective method by which to predict and investigate the response of a physiological system to in vivo stresses and applied perturbations. Utilizing computer topography scans of a cadaveric elbow, a virtual representation of the joint was created using the commercially available MIMICS(TM) and SolidWorks(TM) software packages. Accurate 3D articular surfaces, ligamentous constraints, and joint contact parameters dictated motion. The model was validated against two cadaveric studies performed by Chanlalit et al. …

Localization Of Auditory Spatial Targets In Sighted And Blind Subjects, Richard Nuckols

Theses and Dissertations

This research was designed to investigate the fundamental nature in which blind people utilize audible cues to attend to their surroundings. Knowledge on how blind people respond to external spatial stimuli is expected to assist in development of better tools for helping people with visual disabilities navigate their environment. There was also interest in determining how blind people compare to sighted people in auditory localization tasks. The ability of sighted individuals, blindfolded individuals, and blind individuals in localizing spatial auditory targets was assessed. An acoustic display board allowed the researcher to provide multiple sound presentations to the subjects. The subjects’ …

Examination Of The Effect Of Different Training Metrics On Performance Of A Minimally Invasive Surgery Transfer Task, Cristofer Madera

Theses and Dissertations

The purpose of this experiment was to determine if there existed techniques to more efficiently train prospective surgeons the skills necessary to capably perform minimally invasive surgical procedures. Also, we wanted to know if trainees could be pushed to cognitively define a laparoscopic environment with a novel hand-eye relationship. To explore these questions, a simulation was setup wherein subjects would perform a laparoscopic transfer task and receive active feedback during training. Different subjects would receive different metrics as feedback and a comparison would be made between subjects with respect to standard metrics. Results of this experiment show that all subjects …

Patient-Specific Modeling Of Adult Acquired Flatfoot Deformity Before And After Surgery, Edward Meade Spratley

Theses and Dissertations

The use of computational modeling is an increasingly commonplace technique for the investigation of biomechanics in intact and pathological musculoskeletal systems. Moreover, given the robust and repeatable nature of computer simulation and the prevalence of software techniques for accurate 3-D reconstructions of tissues, the predictive power of these models has increased dramatically. However, there are no patient-specific kinematic models whose function is dictated solely by physiologic soft-tissue constraints, articular shape and contact, and without idealized joint approximations. Moreover, very few models have attempted to predict surgical effects combined with postoperative validation of those predictions. Given this, it is not surprising …

Extracting The Structure And Conformations Of Biological Entities From Large Datasets, Ali Dashti

Theses and Dissertations

In biology, structure determines function, which often proceeds via changes in conformation. Efficient means for determining structure exist, but mapping conformations continue to present a serious challenge. Single-particles approaches, such as cryogenic electron microscopy (cryo-EM) and emerging "diffract & destroy" X-ray techniques are, in principle, ideally positioned to overcome these challenges. But the algorithmic ability to extract information from large heterogeneous datasets consisting of "unsorted" snapshots - each emanating from an unknown orientation of an object in an unknown conformation - remains elusive.

It is the objective of this thesis to describe and validate a powerful suite of manifold-based algorithms …

Patient-Oriented Evidence-Based Treatment Decision Support System (Treatquest®) For Lung Cancer, Danqing Hu

Theses and Dissertations

Involving patients in healthcare decisions makes a significant and enduring difference to healthcare outcomes. One challenge for patients is the lack of evidence-based information and tools to support their decision making. Although patients have access to significant information through internet and other sources, it is not personalized for their specific situation. This dissertation attempts to help patients acquire evidence-based information relevant to their own situation, so they can make a more informed decision in co-operation with their physicians. Lung cancer has been selected as a focus for this study because lung cancer presents very complex decision making situation and is …

Angiography And Monitoring Of Hemodynamic Signals In The Brain Via Optical Coherence Tomography, Alana Mauluidy Soehartono

Theses and Dissertations

The brain is a complex network of interconnected neurons with each cell functioning as a nonlinear processing unit. Neural responses to stimulus can be described by activity in neurons. While blood flow changes have been associated with neural activity and are critical to brain function, this neurovascular coupling is not well understood. This work presents a technique for neurovascular interrogation, combining optogenetics and optical coherence tomography.

Optogenetics is a recently developed neuromodulation technique to control activity in the brain using light with precise spatial neuronal control and high temporal resolution. Using this method, cells act as light-gated ion channels and …

Extraction And Classification Of Drug-Drug Interaction From Biomedical Text Using A Two-Stage Classifier, Majid Rastegar-Mojarad

Theses and Dissertations

One of the critical causes of medical errors is Drug-Drug interaction (DDI), which occurs when one drug increases or decreases the effect of another drug. We propose a machine learning system to extract and classify drug-drug interactions from the biomedical literature, using the annotated corpus from the DDIExtraction-2013 shared task challenge. Our approach applies a two-stage classifier to handle the highly unbalanced class distribution in the corpus. The first stage is designed for binary classification of drug pairs as interacting or non-interacting, and the second stage for further classification of interacting pairs into one of four interacting types: advise, effect, …

Spectral Analysis Of Nonstationary Heart Rate Of Neonates Receiving Therapeutic Hypothermia Treatment, Tareq Al-Shargabi

Theses and Dissertations

We studied Heart Rate Variability (HRV) evolution during therapeutic hypothermia in newborns with hypoxic ischemic encephalopathy (HIE) using spectral analysis. We hypothesized that HRV measures are predictive of neurological outcome in babies with HIE. Non-stationarity in the data causes inaccurate quantification of the spectral power. A modification was proposed to power spectral analysis approach to mitigate the effect of non-stationarity. The modified and the standard approaches were applied to cardiac beat-to-beat intervals of newborns receiving hypothermia treatment. The performance of the approaches in distinguishing the RRi dynamics of two groups of newborns was assessed using area under the receiver operating …

The Design And Development Of A Perceptual-Based Haptic Display Device, Sohaib Akhter

Theses and Dissertations

Graphical information presented as pictures, graphs, maps, and the like are an important media for relaying knowledge and are a fundamental means of education rarely experienced by people who are blind or have a severe visual impairment. This thesis presents the design, development and testing of a multiple finger, haptic matrix dynamic display device capable of relaying graphical information through simulated textures. The design is based on user perception studies that determined which hand constraints provided the best tradeoff between simplicity of design, accuracy and time to answer. The best design was one that incorporated multiple fingers in close proximity …

Efficient Computation Of K-Nearest Neighbor Graphs For Large High-Dimensional Data Sets On Gpu Clusters, Ali Dashti

Theses and Dissertations

The k-Nearest Neighbor Graph (k-NNG) and the related k-Nearest Neighbor (k-NN) methods have a wide variety of applications in areas such as bioinformatics, machine learning, data mining, clustering analysis, and pattern recognition. Our application of interest is manifold embedding. Due to the large dimensionality of the input data (<15k), spatial subdivision based techniques such OBBs, k-d tree, BSP etc., are not viable. The only alternative is the brute-force search, which has two distinct parts. The first finds distances between individual vectors in the corpus based on a pre-defined metric. Given the distance matrix, the second step selects k nearest neighbors for each member of the query data set.

This thesis presents the development and implementation of a distributed exact k-Nearest Neighbor Graph (k-NNG) construction method. The proposed method uses Graphics Processing Units (GPUs) and exploits multiple levels of parallelism for distributed computational systems using GPUs. It is scalable for different cluster sizes, with each compute node in the cluster …

Continuum Deformation Model For Drug-Eluting Stent (Des) Medical Devices Using Finite Element Analysis (Fea), Solki Lee

Theses and Dissertations

The development of coronary stent medical devices was originally considered as a major advance in the treatment of obstructive cardiovascular disease. The implantation of stent, however, involves clinical adverse effects such as re-narrowing of arterial wall after stenting. Drug-eluting stents (DES) have been developed to prevent such adverse effects by slowly delivering anti-proliferative and/or anti-inflammatory drugs from coating composites of drug-containing polymers. One of the major issues in DES implantation is, however, that the coatings comprised of drug and polymer composite phases are often fractured or delaminated during the deployment of stent, which can lead to more serious clinical complications. …

Density Functional Theory (Dft) Study On The Hydrolysis Behavior Of Degradable Mg/Mg Alloys For Biomedical Applications, Marjan Nezafati

Theses and Dissertations

Magnesium-based (Mg and/or Mg alloys) materials possess many advantageous physicochemical/biological characteristics such as good biocompatibility and similarity of the mechanical properties to the human bone tissue, which renders this material a promising candidate for the biomedical and implant applications. One of the most attractive features of Mg-based materials is the degradability in the physiological environment. With the burst of research on the biodegradable materials for the healthcare device applications, Mg and its alloys attracted a strong attention in the bioengineering field in recent years. However, the major limitation of applying Mg-based materials to biomedical applications is the fast degradation/corrosion rate …

Fibrinogen-Conjugated Gold-Coated Magnetite Nanoparticles For Antiplatelet Therapy, Evan Schuerer Krystofiak

Theses and Dissertations

Ischemic stroke is the world's second leading cause of death and accounts for 2-4% of total worldwide healthcare costs. Ischemic stroke is caused by the occlusion of arteries responsible for supplying blood to the brain, which can result in disability or death. Arterial blood clots consist of aggregates of activated platelets wrapped in a mesh of fibrin. Tissue plasminogen activator, the only current FDA-approved treatment for ischemic stroke, functions by lysing fibrin in a blood clot. Unfortunately, tissue plasminogen activator significantly increases bleeding risks, which restricts its use. Alternatively, targeting and disrupting platelets within a clot could improve stroke outcome. …

Semi-Interpenetrating Network Gelatin Fiber Sca Old For Oral Mucosal Delivery Of Insulin, Leyuan Xu

Theses and Dissertations

Common therapy for diabetes mellitus is subcutaneous administration of insulin that is subject to serious disadvantages, such as patient noncompliance and occasional hypoglycemia. Hence, oral administration of insulin could be more convenient and serve as a desired route. However, oral administration of insulin is severely limited by the low bioavailability of insulin through the gastrointestinal tract. In this study, a semi-interpenetrating network gelatin fiber scaffold (sIPN GF) was fabricated for oral mucosal delivery of insulin as an alternative route. This sIPN GF was engineered from an electrospun gelatin fiber scaffold (GF), which was further crosslinked with polyethylene glycol diacrylate (PEG-DA) …

The Effect Of Concurrent Cognitive-Visuomotor Multitasking And Task Difficulty On Dynamic Functional Connectivity In The Brain, Plamen Nikolov

Theses and Dissertations

This thesis investigated the effect of visuomotor and working memory 1) task difficulty and 2) multitasking on dynamic functional connectivity in the brain. Studies have only recently begun to investigate functional connectivity within the scope of concurrent dual task or varying task difficulty conditions (Cocchi, Zalesky, et al. 2011; Rietschel et al. 2012). A series of EEG recordings were conducted during execution of visuomotor or working memory tasks within a novel paradigm using BCI2VR custom MATLAB toolbox. Functional connectivity was correlated with task-related coherence (TRCoh) analysis between two task conditions involving either variation in task difficulty or concurrent execution during …

Modernization Of The Mock Circulatory Loop: Advanced Physical Modeling, High Performance Hardware, And Incorporation Of Anatomical Models, Charles Taylor

Theses and Dissertations

A systemic mock circulatory loop plays a pivotal role as the in vitro assessment tool for left heart medical devices. The standard design employed by many research groups dates to the early 1970's, and lacks the acuity needed for the advanced device designs currently being explored. The necessity to update the architecture of this in vitro tool has become apparent as the historical design fails to deliver the performance needed to simulate conditions and events that have been clinically identified as challenges for future device designs. In order to appropriately deliver the testing solution needed, a comprehensive evaluation of the …

Automatic Segmentation Of Pressure Images Acquired In A Clinical Setting, Anathea Pepperl

Theses and Dissertations

One of the major obstacles to pressure ulcer research is the difficulty in accurately measuring mechanical loading of specific anatomical sites. A human motion analysis system capable of automatically segmenting a patient's body into high-risk areas can greatly improve the ability of researchers and clinicians to understand how pressure ulcers develop in a hospital environment. This project has developed automated computational methods and algorithms to analyze pressure images acquired in a hospital setting. The algorithm achieved 99% overall accuracy for the classification of pressure images into three pose classes (left lateral, supine, and right lateral). An applied kinematic model estimated …

The Design And Validation Of A Computational Model Of The Human Wrist Joint, Afsarul Mir

Theses and Dissertations

Advancements in computational capabilities have allowed researchers to turn towards modeling as an efficient tool to replicate and predict outcomes of complex systems. Computational models of the musculoskeletal system have gone through various iterations with early versions employing dramatic simplifications. In this work, a three-dimensional computational model of the wrist joint was developed. It accurately recreated the skeletal structures of the hand and wrist and represented the constraints imposed by soft tissue structures like ligaments, tendons, and other surrounding tissues. It was developed to function as a tool to investigate the biomechanical contributions of structures and the kinematic response of …

Tissue Engineering Composite Biomimetic Gelatin Sponges For Bone Regeneration, Isaac Rodriguez

Theses and Dissertations

The field of tissue engineering aims to develop viable substitutes with the ability to repair and regenerate the functions of damaged tissue. Common practices to supplement bone regeneration in larger defects include bone graft biomaterials such as autografts, allografts, xenografts, and synthetic biomaterials. Autologous bone grafting is the current gold-standard procedure used to replace missing or damaged bone. However, these grafts have disadvantages such as donor site morbidity, limited availability, and the need for a secondary surgery. The focus of this study is to tissue engineer a lyophilized gelatin composite sponge composed of hydroxyapatite (HA), chitin whiskers (CW), and preparations …

Development Of A Novel Revison Total Hip Arthroplasty Method For Femoral Component Extraction, Michael Kevin Keenan

Theses and Dissertations

Revision total hip arthroplasty is an expensive, arduous procedure where a femoral implant must first be removed and then replaced. The most difficult part of this procedure is the removal of the hip implant, without damaging the host bone. To make this process easier, it is proposed that a device could utilize an implant's natural frequency to propagate cracks in the bone cement used to bond the implant to the host bone. The foci of this thesis is to (i) determine the natural frequency of an implant, (ii) design a device that can be easily used in a surgical setting …

The Mechanotransduction Of Primary Cilia In Tumor Progression Of Lung Adenocarcinoma, Sagar Patel

Theses and Dissertations

The objective of this study was to investigate primary cilia and their mechanotransduction role in lung adenocarcinoma tumor progression. The main focus investigated the effect of primary cilia on cell cycle progression, survival, adhesion and migration analysis of these cells and the role of sonic hedgehog signaling pathway in mechanotransduction. Human Non-Small Cell Lung Cancer (NSCLC) adenocarcinoma biopsies contain more primary cilia than non-tumor lung sections. To observe the effects of primary cilia presence in lung cancer cells in-vitro, formation of primary cilia is inhibited using small interfering RNA. A549 cells with intact primary cilia observe less cell cycle progression …

Computer Based Behavioral Biometric Authentication Via Multi-Modal Fusion, Kyle O. Bailey

Theses and Dissertations

Biometric computer authentication has an advantage over password and access card authentication in that it is based on something you are, which is not easily copied or stolen. One way of performing biometric computer authentication is to use behavioral tendencies associated with how a user interacts with the computer. However, behavioral biometric authentication accuracy rates are much larger then more traditional authentication methods. This thesis presents a behavioral biometric system that fuses user data from keyboard, mouse, and Graphical User Interface (GUI) interactions. Combining the modalities results in a more accurate authentication decision based on a broader view of the …

Toward Directing Cell Fate: Carbon Nanotubes As Modulators Of Extracellular And Transporters Of Intracellular Cues, Qingsu Cheng

Theses and Dissertations

The unique properties of CNTs lead CNTs attractive in biological engineering applications. It is expected to use CNT based biomaterials for clinic use in the near future. CNTs can be used to tune cellular fate through bother extracellular pathway and intracellular pathway. CNT based biomaterials has been applied into bone, nerves, and cardiovascular system. There has also been progress in the use of CNTs in controlling cellular alignment, to enhance tissue regeneration, growth factor delivery and gene delivery.

Pluripotent stem cells (hPSCs) offer a promising tool in tissue engineering strategies, as their differentiated derivatives can be used to reconstruct most …

Automated Detection Of Incomplete Exhalation As An Indirect Detection Of Auto-Peep On Mechanically Ventilated Adults, Nyimas Arief

Theses and Dissertations

Auto-PEEP is auto positive end-expiratory pressure due to excessive amounts of alveolar gas produced by sustained recurrent incomplete exhalation. Incomplete exhalation occurs when the exhaled breath never reaches a flow rate of 0 L/min. The objective of this dissertation is to develop an automated detection system of auto-PEEP through incomplete exhalation as revealed by ventilator graphics for mechanically ventilated adults. Auto-PEEP can cause adverse effects if allowed to linger and if not quickly identified. An automated detection system will be instrumental in helping to quickly identify auto-PEEP. A computerized algorithm was developed to detect incomplete exhalation based on the following …

Biomechanics Of Porcine Renal Artery And The Development Of A Replacment Vessel, Mohamed Gabr

Theses and Dissertations

Mechanical characterization of biological soft tissues is essential in the field of biomedical engineering. In this study several loading experiments have been performed to efficiently characterize the passive mechanical response of both native porcine renal arteries and newly developed tissue constructs. The first aim of these studies is to determine whether there is a difference in mechanical response between the main renal artery and its first branch. After fitting the bi-axial data to a Holzapfel-type constitutive model, the results show that there is no statistical difference between the model parameters for renal artery and the first branch. The only significant …