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Description
Translating research has been a goal of the Department of Health and Human Services since 1999. Through two years of iteration and interview with our community members, we have collected insights into the barriers to accomplishing this goal. Liberating Science is a think-tank of researchers and scientists who seek to create a more transparent process to accelerate innovation starting with behavioral health research.
ContributorsRaghani, Pooja Sioux (Author) / Hekler, Eric (Thesis director) / Buman, Matthew (Committee member) / Pruthi, Virgilia Kaur (Committee member) / Barrett, The Honors College (Contributor) / Department of Chemistry and Biochemistry (Contributor) / Biomedical Informatics Program (Contributor)
Created2014-05
Description
Methane (CH4) is very important in the environment as it is a greenhouse gas and important for the degradation of organic matter. During the last 200 years the atmospheric concentration of CH4 has tripled. Methanogens are methane-producing microbes from the Archaea domain that complete the final step in breaking down organic matter to generate methane through a process called methanogenesis. They contribute to about 74% of the CH4 present on the Earth's atmosphere, producing 1 billion tons of methane annually. The purpose of this work is to generate a preliminary metabolic reconstruction model of two methanogens: Methanoregula boonei 6A8 and Methanosphaerula palustris E1-9c. M. boonei and M. palustris are part of the Methanomicrobiales order and perform hydrogenotrophic methanogenesis, which means that they reduce CO2 to CH4 by using H2 as their major electron donor. Metabolic models are frameworks for understanding a cell as a system and they provide the means to assess the changes in gene regulation in response in various environmental and physiological constraints. The Pathway-Tools software v16 was used to generate these draft models. The models were manually curated using literature searches, the KEGG database and homology methods with the Methanosarcina acetivorans strain, the closest methanogen strain with a nearly complete metabolic reconstruction. These preliminary models attempt to complete the pathways required for amino acid biosynthesis, methanogenesis, and major cofactors related to methanogenesis. The M. boonei reconstruction currently includes 99 pathways and has 82% of its reactions completed, while the M. palustris reconstruction includes 102 pathways and has 89% of its reactions completed.
ContributorsMahendra, Divya (Author) / Cadillo-Quiroz, Hinsby (Thesis director) / Wang, Xuan (Committee member) / Stout, Valerie (Committee member) / Barrett, The Honors College (Contributor) / Computing and Informatics Program (Contributor) / School of Life Sciences (Contributor) / Biomedical Informatics Program (Contributor)
Created2014-05
Description
This study focused on the connection between the EnvZ/OmpR two-component regulatory system and the iron homeostasis system in Escherichia coli, specifically how a mutant form of EnvZ11/OmpR is able to reduce the expression of fepA::lacZ, a reporter gene fusion in E. coli. FepA is one of several outer membrane siderophore receptors that allow extracellular siderophores bound to iron to enter the cells to power various biological processes. Previous studies have shown that in E. coli cells that expressed a mutant allele of envZ, called envZ11, which led to altered expression of various iron genes including down regulation of fepA::lacZ. The wild type EnvZ/OmpR system is not considered to regulate iron genes, but because these envz11 strains had downregulated fepA::lacZ, this study was undertaken to understand the connection and mechanisms of this downregulation. A large number of Lac+ revertants were obtained from the B32-2483 strain (envz11 and fepA::lacZ) and 7 Lac+ revertants that had reversion mutations not directly correcting the envZ11 allele were further characterized. With P1 phage transduction genetic mapping that involved moving a kanamycin resistance marker linked to fepA::lacZ, two Lac+ revertants were found to have their reversion mutations in the fepA promoter region, while the other five revertants had their mutations mapping outside the fepA region. These two revertants underwent DNA sequencing and found to carry two different single base pair mutations in two different locations of the fepA promoter region. Each one is in the Fur repressor binding region, but one also may have affected the Shine-Dalgarno region involved in translation initiation. All 7 reveratants underwent beta-galactosidase assays to measure fepA::lacZ expression. The two revertants that had mutations in the fepA promoter region had significantly increased fepA activity, with the revertant with the Shine-Dalgarno mutation having the most elevated fepA expression. The other 5 revertants that did not map in the fepA region had fepA expression elevated to the same level as that found in the wild type EnvZ/OmpR background. The data suggest that the negative effect of envZ11 can be overcome by multiple mechanisms, including directly correcting the envZ11 allele or changing the fepA promoter region.
ContributorsKalinkin, Victor Arkady (Co-author) / Misra, Rajeev (Co-author, Thesis director) / Mason, Hugh (Committee member) / Foy, Joseph (Committee member) / Biomedical Informatics Program (Contributor) / School of Life Sciences (Contributor) / W. P. Carey School of Business (Contributor) / Barrett, The Honors College (Contributor)
Created2016-05
Description
Electrical stimulation has previously been effective in neural cells activation within retinas affected by degenerative retinal disease. However current technology has at most allowed blind individuals to perceive light without significant resolution, as implants are limited by the spatial constraints of the eye. Photoreactive nanoparticles may provide a solution to this issue, as their small size would allow for the incorporation of higher numbers of stimulatory elements, thus increasing visual resolution. Semiconductive nanocrystal quantum dots (QDs) and gold nanoparticles (AuNPs) both exhibit photoreactive properties which may result in sufficient electrical stimulation to activate neural cells in the retina. This study investigated the electrochemistry and photoreactivity of QDs and AuNPs encapsulated within the hydrophobic region of small unilamellar lipid vesicles (SUVs) to evaluate their potential for application in retinal stimulation. Absorbance of the constructs was evaluated on the day of fabrication and 24 hours later to determine the ability of the particles to react to light while encapsulated, as well as to evaluate stability of the construct over time. Electrical impedance spectroscopy (EIS) was conducted at both time points to determine the electrochemical character of the bilayer and further evaluate construct stability. Although quantum dots may increase the stability of the bilayer over time and improve its capacitative properties, lipid encapsulation appears to obscure the photoreactive properties of the quantum dots. In the case of gold nanoparticles, the construct is initially stabilized but deteriorates more quickly than those SUVs containing quantum dots, as evidenced by an increase in substrate diffusion. Additionally, although these constructs are more photoreactive than those containing QDs, the increase in absorbance is observed primarily in a range below that of the visible spectrum, a feature which is of limited use for the proposed application. Further studies should investigate alternative methods of nanoparticle capping to improve stability and absorbance in this system.
ContributorsReidell, Olivia Rose (Author) / La Belle, Jeffrey T (Thesis director) / Coursen, Jerry (Committee member) / Barrett, The Honors College (Contributor) / School of Mathematical and Statistical Sciences (Contributor) / School of Life Sciences (Contributor)
Created2015-05
Description
The goal of this project was to create a card game that would quickly and easily allow medical professionals to learn important information. This project seeks to advance ways in which medical staff gain information about disease outbreaks through the creation of a card game which teaches players the proper steps and procedure to triage and treat patients who are suspected to have Ebola Hemorrhagic Fever, which was not done properly during the recent outbreak. To create this game, research was conducted on the information given by the Center for Disease Control and Prevention (CDC) on the various steps to triaging those who were suspected of having Ebola. Various prototypes of the game were made and tested to optimize the win-lose ratio while still being an enjoyable game to play. This card game is fast-paced, small, and can be played either individually or with more than one person. It is loosely based off of Solitaire. This game has gone through three prototypes of the cards as well as a few brief testing periods. Through the methods and procedure used in this game's creation, it has been concluded that this method is a great way to easily teach players a proper procedure, and that this method of game can be applied to other disease breakouts and even to other fields where information must be learned quickly. Future steps for this game include improving the graphic art used in the cards, and continuing on to create a smartphone application.
ContributorsHenriksen, Carissa (Co-author) / Pratt, Breanna (Co-author) / LaBelle, Jeffrey (Thesis director) / Coursen, Jerry (Committee member) / Harrington Bioengineering Program (Contributor) / Barrett, The Honors College (Contributor)
Created2015-12
Description
Glioblastoma (GBM) is an extremely malignant form of brain cancer characterized by rapid progression and poor patient survival. Even after standard of care treatments, less than ten percent of patients with this disease survive five years. More effective therapeutic options are urgently needed to improve outcomes for patients with GBM. Adequate drug delivery is a critical challenge in GBM treatment, as drugs delivered systemically must be able to penetrate the blood brain barrier (BBB) and reach the tumor at therapeutic levels. To address this, we developed a resource to catalog BBB penetration information for investigational agents currently in clinical trials in cancer. Using an in silico prediction model and manual annotation to capture existing knowledge from the published literature, BBB content for ~500 investigational drugs was added to the investigational database tool. In addition to BBB content, the database also includes information on the gene targets of the included therapies. The investigational database tool was used to identify investigational agents that (1) may have increased activity against GBM based on the presence of a specific mutation in the tumor sample and (2) have evidence suggesting the compounds may penetrate the BBB. By prioritizing investigational agents for further study based on evidence for BBB penetration, this resource can help the GBM research community pursue more effective treatments for GBM.
ContributorsHerring, Emily Lora (Author) / Coursen, Jerry (Thesis director) / Byron, Sara (Committee member) / Biomedical Informatics Program (Contributor) / Harrington Bioengineering Program (Contributor) / Barrett, The Honors College (Contributor)
Created2016-05
Description
Concept maps are teaching tools used to encourage students to utilize active learning strategies and to take responsibility for their own learning. The purpose of this two-semester study is to evaluate the use of concept maps in a junior-level Biomaterials classroom. The maps are assessed based on students' attitude, achievement, and persistence. No significant correlation was determined between concept map score and achievement (correlation coefficient = 0.1739 in the first semester, 0.2208 in the first set of the second semester, and 0.0829 in the second set of the second semester), though further studies should be completed to support the effects of concept mapping. Statistically significant increases in student attitude regarding concept mapping cost, interest, and utility between the two semesters were found (p = 0.013, p = 0.105, p = 0.002, p = 0.083 overall). Persistence was moderately high throughout the entire study (98% in the first semester and 100% in the second semester).
ContributorsHolm, Mikayle Ashlyn (Author) / Ankeny, Casey (Thesis director) / Graham, Kaely (Committee member) / Harrington Bioengineering Program (Contributor) / Biomedical Informatics Program (Contributor) / School of Mathematical and Statistical Sciences (Contributor) / Barrett, The Honors College (Contributor)
Created2016-05
Description
The adaptive artificial-intelligence (AI) medical device industry is a novel industry in the United States offering innovations to the healthcare field. The rapid expansion of this industry in recent years has drawn attention from multiple stakeholders causing a heated debate about how to introduce these innovations into the market while maintaining patient safety and treatment efficacy. Since early 2019, the U.S. Food and Drug Administration (FDA) has been releasing statements in regards to the improvement of regulation for this new technology, but has yet to take further actions. Dilemmas including 1) a difficult regulatory process, 2) a heightening financial burden and 3) looming liability issues, are reasons adaptive AI medical devices have struggled to be advanced. By conducting a thorough analysis of these 3 issues, recognizing the intricacies of them separately and together, this study develops a better understanding of the landscape adaptive AI technology is facing and provides a clearer picture for the future of the industry.
ContributorsOgden, Ravyn Nicole (Author) / Coursen, Jerry (Thesis director) / Pizziconi, Vincent (Committee member) / Harrington Bioengineering Program (Contributor) / Barrett, The Honors College (Contributor)
Created2020-05
Description
Integrating behavioral and physical health is the key to value-based care. Little is known about data sharing preferences and consent practices for individuals with behavioral health conditions. This study focuses on identifying behavioral health provider perceptions about patient data sharing practices, preferences and perceived impact on care resulting from enhanced patient control of record types during consent for data sharing.
ContributorsHiestand, Megan (Author) / Grando, Adela (Thesis director) / Murcko, Anita (Committee member) / Sharp, Richard (Committee member) / Biomedical Informatics Program (Contributor) / Barrett, The Honors College (Contributor)
Created2017-12
Description
Less than half of all premedical applicants get accepted into a medical school, 39.3% of applicants to be precise, and that statistic is based on the number of matriculants out of the total applicants in 2015. With such a discouraging acceptance rate, many students who start out as premed are often not towards the end of their undergraduate career and post-graduation because they do not feel prepared for medical school. It’s difficult for premed students to find all the information they need in one place rather than going from place to place or school website to school website. Additionally, it can be a hassle for premeds to keep track of all their coursework and calculate separate GPAs for each category especially due to how annoying Excel spread sheets can be. This is where the conceptualization of Premed Portfolio comes in. Premed Portfolio is a prototype mobile application. Premed Portfolio aims to streamline the process of preparing for medical school by guiding students to create a portfolio aimed to address the most important aspects of a medical school application. Students will be able to keep track of their cumulative GPA, BCPM (also known as science/math) GPA, MCAT Scores, prerequisite coursework and many more targeted areas of medical school. Premed Portfolio will also hope to use the stats that students provide and educate them on their chances of getting into medical school.
ContributorsSiddique, Shabab (Co-author, Co-author) / Rahman, Ahnaf (Co-author) / Patel, Dhruv (Co-author) / Sarwat Abdelghany Aly Elsayed, Mohamed (Thesis director) / Coursen, Jerry (Committee member) / Computer Science and Engineering Program (Contributor) / Barrett, The Honors College (Contributor)
Created2019-05