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Articles 1 - 11 of 11

Full-Text Articles in Biomedical Engineering and Bioengineering

A Discrete-Event Simulation Approach For Modeling Human Body Glucose Metabolism, Buket Aydas Aug 2018

A Discrete-Event Simulation Approach For Modeling Human Body Glucose Metabolism, Buket Aydas

Theses and Dissertations

This dissertation describes CarbMetSim (Carbohydrate Metabolism Simulator), a discrete-event simulator that tracks the blood glucose level of a person in response to a timed sequence of diet and exercise activities. CarbMetSim implements broader aspects of carbohydrate metabolism in human beings with the objective of capturing the average impact of various diet/exercise activities on the blood glucose level. Key organs (stomach, intestine, portal vein, liver, kidney, muscles, adipose tissue, brain and heart) are implemented to the extent necessary to capture their impact on the production and consumption of glucose. Key metabolic pathways (glucose oxidation, glycolysis and gluconeogenesis) are accounted for ...


Quantitative Optical Studies Of Oxidative Stress In Rodent Models Of Eye And Lung Injuries, Zahra Ghanian Dec 2016

Quantitative Optical Studies Of Oxidative Stress In Rodent Models Of Eye And Lung Injuries, Zahra Ghanian

Theses and Dissertations

Optical imaging techniques have emerged as essential tools for reliable assessment of organ structure, biochemistry, and metabolic function. The recognition of metabolic markers for disease diagnosis has rekindled significant interest in the development of optical methods to measure the metabolism of the organ.

The objective of my research was to employ optical imaging tools and to implement signal and image processing techniques capable of quantifying cellular metabolism for the diagnosis of diseases in human organs such as eyes and lungs. To accomplish this goal, three different tools, cryoimager, fluorescent microscope, and optical coherence tomography system were utilized to study the ...


Design And Basic Verification Of A Discrete Event Simulator For Glucose Metabolism In Human Beings, Elizabeth Andrews Dec 2016

Design And Basic Verification Of A Discrete Event Simulator For Glucose Metabolism In Human Beings, Elizabeth Andrews

Theses and Dissertations

This thesis describes the design and basic verification of a discrete event simulator for glucose metabolism in human beings. The simulator implements the glucose metabolism related behavior of various organs in the human body and tracks the blood plasma glucose level as the human body goes through a sequence of diet and exercise events. The simulator can mimic insulin resistance in various organs as well as the loss of insulin production in the pancreas and the adverse impact of these changes on the metabolic behavior of various organs. Thus, the simulator can serve as a model for people with diabetes ...


Simulating The Impact Of Diet And Exercise On Blood Glucose Level For People With Type 2 Diabetes, Md Abdul Halim Sarkar Aug 2015

Simulating The Impact Of Diet And Exercise On Blood Glucose Level For People With Type 2 Diabetes, Md Abdul Halim Sarkar

Theses and Dissertations

This thesis describes the design of a discrete-event simulator that tracks the blood glucose level and glycated hemoglobin level as a person goes through her daily diet and exercise activities. This thesis also reports results of simulations performed using the simulator that show the changes in blood glucose level and glycated hemoglobin level as a diabetic person makes specific changes to her diet/exercise routine.


Scattering Correction Methods Of Infrared Spectra Using Graphics Processing Units, Asher Imtiaz May 2015

Scattering Correction Methods Of Infrared Spectra Using Graphics Processing Units, Asher Imtiaz

Theses and Dissertations

Fourier transform infrared (FTIR) microspectroscopy has been used for many years as a technique that provides distinctive structure-specific infrared spectra for a wide range of materials (e.g., biological (tissues, cells, bacteria, viruses), polymers, energy related, composites, minerals). The mid-infrared radiation can strongly scatter from distinct particles, with diameters ranging between 2-20 micrometer. Transmission measurements of samples (approximately 100 micrometers x 100 micrometers x 10 micrometers) with distinct particles. will be dominated by this scattering (Mie scattering). The scattering distorts the measured spectra, and the absorption spectra appear different from pure absorbance spectra. This thesis presents development and implementation of ...


Citefinder: A System To Find And Rank Medical Citations, Seyed Soheil Moosavinasab May 2014

Citefinder: A System To Find And Rank Medical Citations, Seyed Soheil Moosavinasab

Theses and Dissertations

This thesis presents CiteFinder, a system to find relevant citations for clinicians' written content. Inclusion of citations for clinical information content makes the content more reliable through the provision of scientific articles as references, and enables clinicians to easily update their written content using new information. The proposed approach splits the content into sentences, identifies the sentences that need to be supported with citations by applying classification algorithms, and uses information retrieval and ranking techniques to extract and rank relevant citations from MEDLINE for any given sentence. Additionally, this system extracts snippets from the retrieved articles. We assessed our approach ...


Monitoring Changes In Hemodynamics Following Optogenetic Stimulation, Seth Thomas Frye May 2014

Monitoring Changes In Hemodynamics Following Optogenetic Stimulation, Seth Thomas Frye

Theses and Dissertations

The brain is composed of billions of neurons, all of which connected through a vast network. After years of study and applications of different technologies and techniques, there are still more questions than answers when it comes to the fundamental functions of the brain. This project aims to provide a new tool which can be used to gain a better understanding of the fundamental mechanisms that govern neurological processes inside the brain. In order for neural networks to operate, blood has to be supplied through neighboring blood vessels. As such, the increase or decrease in the blood supply has been ...


Extraction And Classification Of Drug-Drug Interaction From Biomedical Text Using A Two-Stage Classifier, Majid Rastegar-Mojarad Dec 2013

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 ...


Extracting The Structure And Conformations Of Biological Entities From Large Datasets, Ali Dashti Dec 2013

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 able to extract ...


Efficient Computation Of K-Nearest Neighbor Graphs For Large High-Dimensional Data Sets On Gpu Clusters, Ali Dashti Aug 2013

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 containing ...


Optical Cryoimaging Of Celular Redox In Kidneys From Diabetic Mice, Sepideh Maleki Aug 2012

Optical Cryoimaging Of Celular Redox In Kidneys From Diabetic Mice, Sepideh Maleki

Theses and Dissertations

Diabetic Nephropathy (DN) is the major single cause of end stage renal diseases (ESRD) in the United States. Diabetes is the third leading fatal disorder after cancer and heart disease. It is affecting 8.3% of the residents of the United States, with a total healthcare cost of $174 billion/yr by 2010.

There currently exists a need for a sensitive and specific diagnosis for temporal detection of oxidative stress (OS) in cellular metabolic levels, which plays an early role in the development of DN. The objective of this research is to use a fluorescence optical imaging technique in order ...