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Computer Aided Clinical Trials For Implantable Cardiac Devices, Rahul Mangharam 2018 University of Pennsylvania

Computer Aided Clinical Trials For Implantable Cardiac Devices, Rahul Mangharam

Real-Time and Embedded Systems Lab (mLAB)

In this paper we aim to answer the question, ``How can modeling and simulation of physiological systems be used to evaluate life-critical implantable medical devices?'' Clinical trials for medical devices are becoming increasingly inefficient as they take several years to conduct, at very high cost and suffer from high rates of failure. For example, the Rhythm ID Goes Head-to-head Trial (RIGHT) sought to evaluate the performance of two arrhythmia discriminator algorithms for implantable cardioverter defibrillators, Vitality 2 vs. Medtronic, in terms of time-to-first inappropriate therapy, but concluded with results contrary to the initial hypothesis - after 5 years, 2,000+ patients ...


Omega: A Software Tool For The Management, Analysis, And Dissemination Of Intracellular Trafficking Data That Incorporates Motion Type Classification And Quality Control, Alessandro Rigano, Vanni Galli, Jasmine M. Clark, Lara E. Pereira, Loris Grossi, Jeremy Luban, Raffaello Giulietti, Tiziano Leidi, Eric Hunter, Mario Valle, Ivo F. Sbalzarini, Caterina Strambio-De-Castilla 2018 University of Massachusetts Medical School

Omega: A Software Tool For The Management, Analysis, And Dissemination Of Intracellular Trafficking Data That Incorporates Motion Type Classification And Quality Control, Alessandro Rigano, Vanni Galli, Jasmine M. Clark, Lara E. Pereira, Loris Grossi, Jeremy Luban, Raffaello Giulietti, Tiziano Leidi, Eric Hunter, Mario Valle, Ivo F. Sbalzarini, Caterina Strambio-De-Castilla

University of Massachusetts Medical School Faculty Publications

MOTIVATION: Particle tracking coupled with time-lapse microscopy is critical for understanding the dynamics of intracellular processes of clinical importance. Spurred on by advances in the spatiotemporal resolution of microscopy and automated computational methods, this field is increasingly amenable to multi-dimensional high-throughput data collection schemes (Snijder et al, 2012). Typically, complex particle tracking datasets generated by individual laboratories are produced with incompatible methodologies that preclude comparison to each other. There is therefore an unmet need for data management systems that facilitate data standardization, meta-analysis, and structured data dissemination. The integration of analysis, visualization, and quality control capabilities into such systems would ...


2'-5'-Oligoadenylate Synthetase 1 (Oas1) And Health Disparities In Prostate Cancer, Aisha S. Hunt 2018 Clark Atlanta University

2'-5'-Oligoadenylate Synthetase 1 (Oas1) And Health Disparities In Prostate Cancer, Aisha S. Hunt

Electronic Theses & Dissertations Collection for Atlanta University & Clark Atlanta University

2’ -5’ –oligoadenylate synthetase 1 (OAS1) is an antiviral enzyme that in the presence of double-stranded RNA structures, such as viral genomes or single-stranded RNA transcripts with significant double-stranded character, converts ATP to a series of 2’ -5’ –oligoadenylates (2-5A). 2-5A promotes dimerization of latent ribonuclease (RNaseL) to form catalytically active RNaseL, a candidate hereditary prostate cancer (PCa) gene. RNaseL is anti-proliferative and promotes senescence and apoptosis in PCa cells. Genotyping analysis was completed on over 600 genomic DNA samples from African-American and Caucasian, normal and PCa subjects. Genotyping was performed to screen the following SNPs in the last exon ...


Modeling And Analyzing An Optogenetic System For Photoactivatable Protein Dissociation, Anvin Thomas, James Schaff 2018 University of Connecticut

Modeling And Analyzing An Optogenetic System For Photoactivatable Protein Dissociation, Anvin Thomas, James Schaff

Honors Scholar Theses

Computational modeling of cell-cell interactions can grant clues and can answer questions about an experiment, especially for observations about binding interactions and kinetics. This approach was used to investigate an interaction between a light-oxygen-voltage (LOV) domain and an engineered protein called Zdark (Zdk). The LOV domain is membrane-bound while Zdk is cytosolic. The LOV domain and Zdk bind strongly in dark (Kd 26.2 nM), and weakly upon exposure to blue light (Kd > 4 μM). Total internal reflection fluorescence (TIRF) images are acquired of Zdk, the fluorescent species bound to a mCherry tag, and the loss of fluorescence ...


Analysis Of Patient Recruitment Methods For Clinical Trials Of Different Heart And Lung Diseases, Oghenevovwero Vovwe Sido 2018 University of North Texas Health Science Center at Fort Worth

Analysis Of Patient Recruitment Methods For Clinical Trials Of Different Heart And Lung Diseases, Oghenevovwero Vovwe Sido

Theses and Dissertations

Patient recruitment is key to the success of any clinical trial, as clinical trials cannot be conducted without the willful participation of subjects. However, clinical trial recruitment has always been a great challenge in clinical studies. This practicum project conducted over an eight-month period, compares three different methods of subject recruitment into 2 clinical research studies conducted at the Heart & Lung Transplant and Pulmonary Research Department of Baylor Scott & White Research Institute, Dallas. The three recruitment methods are: Physician Referral, EHR Screening and Online Portals. We hypothesize that Physician referral is a more successful method for enrolling patients into clinical ...


Policy Of Current Hospital Translation Services And Recommendations For Future Adjustments For Spanish-Speaking Patients, Isidora Rose Beach 2018 University of Tennessee, Knoxville

Policy Of Current Hospital Translation Services And Recommendations For Future Adjustments For Spanish-Speaking Patients, Isidora Rose Beach

University of Tennessee Honors Thesis Projects

No abstract provided.


Failure Of Primary Total Knee Arthroplasty: Establishing A Baseline For Retrieval Analysis Using Well-Functioning Necropsy Specimens, Meredith Perkins 2018 University of Tennessee Health Science Center

Failure Of Primary Total Knee Arthroplasty: Establishing A Baseline For Retrieval Analysis Using Well-Functioning Necropsy Specimens, Meredith Perkins

Theses and Dissertations (ETD)

Introduction. Total knee arthroplasty (TKA) is an effective treatment for end-stage osteoarthritis of the knee. While many patients have positive functional and pain outcomes following primary TKA, a subset of patients have suboptimal outcomes, such as unexplained pain or aseptic loosening of the implant components necessitating revision of the index procedure. The understanding of the exact etiology of these suboptimal outcomes of primary TKA is in its infancy. In order to elucidate the etiology of failure in primary TKAs, a baseline for the factors contributing to arthroplasty failure and dissatisfaction must first be established. The purpose of this study was ...


Open Cycle: Forecasting Ovulation For Family Planning, Karen Clark, Mridul Jain, Araya Messa, Vinh Le, Eric C. Larson 2018 Southern Methodist University

Open Cycle: Forecasting Ovulation For Family Planning, Karen Clark, Mridul Jain, Araya Messa, Vinh Le, Eric C. Larson

SMU Data Science Review

Abstract: Forecasting the length and different phases of a woman’s menstrual cycle, especially ovulation, is an important aspect of family planning. Predicting fertility has many uses in family planning including avoiding pregnancy and assisting couples in becoming pregnant. Past methods have focused on monitoring basal body temperature (BBT), cervical mucus changes, and hormonal levels to determine fertility. While these methods can provide an accurate prediction of ovulation these tests can become expensive, time-consuming, and do not provide prediction until after ovulation has occurred. In this paper, we compare conventional fertility assessment that is based on a rule known as ...


Quantifying Nitric Oxide Production In Platelets Using A Griess Reagent System, Chelsea Shultis 2018 Lynchburg College

Quantifying Nitric Oxide Production In Platelets Using A Griess Reagent System, Chelsea Shultis

Undergraduate Theses and Capstone Projects

Nitric oxide (NO) is a signaling molecule that regulates many physiological processes in the human body. Common examples of processes that NO is involved in range from immune responses to the regulation of blood pressure. In intact blood vessels, nitric oxide is constitutively released by vascular endothelial cells in order to prevent platelet adhesion and clot formation. Platelets have also been shown to release small amounts of NO as they aggregate on damaged blood vessels. Platelet-derived NO is hypothesized to play an important role in limiting the extent of clot formation. Although platelets produce nitric oxide during aggregation, it is ...


Application Of Area Scaling Analysis To Identify Natural Killer Cell And Monocyte Involvement In The Grantoxilux Antibody Dependent Cell-Mediated Cytotoxicity Assay, Justin Pollara, Chiara Orlandi, Charles Beck, R Whitney Edwards, Yi Hu, Shuying Liu, Shixia Wang, Richard A. Koup, Thomas N. Denny, Shan Lu, Georgia D. Tomaras, Anthony DeVico, George K. Lewis, Guido Ferrari 2018 Duke University

Application Of Area Scaling Analysis To Identify Natural Killer Cell And Monocyte Involvement In The Grantoxilux Antibody Dependent Cell-Mediated Cytotoxicity Assay, Justin Pollara, Chiara Orlandi, Charles Beck, R Whitney Edwards, Yi Hu, Shuying Liu, Shixia Wang, Richard A. Koup, Thomas N. Denny, Shan Lu, Georgia D. Tomaras, Anthony Devico, George K. Lewis, Guido Ferrari

Open Access Articles

Several different assay methodologies have been described for the evaluation of HIV or SIV-specific antibody-dependent cell-mediated cytotoxicity (ADCC). Commonly used assays measure ADCC by evaluating effector cell functions, or by detecting elimination of target cells. Signaling through Fc receptors, cellular activation, cytotoxic granule exocytosis, or accumulation of cytolytic and immune signaling factors have been used to evaluate ADCC at the level of the effector cells. Alternatively, assays that measure killing or loss of target cells provide a direct assessment of the specific killing activity of antibodies capable of ADCC. Thus, each of these two distinct types of assays provides information ...


Biochemical Analysis Of Dimethyl Suberimidate-Crosslinked Yeast Nucleosomes, Yuichi Ichikawa, Paul D. Kaufman 2018 University of Massachusetts Medical School

Biochemical Analysis Of Dimethyl Suberimidate-Crosslinked Yeast Nucleosomes, Yuichi Ichikawa, Paul D. Kaufman

Open Access Articles

Nucleosomes are the fundamental unit of eukaryotic chromosome packaging, comprised of 147 bp of DNA wrapped around two molecules of each of the core histone proteins H2A, H2B, H3, and H4. Nucleosomes are symmetrical, with one axis of symmetry centered on the homodimeric interaction between the C-termini of the H3 molecules. To explore the functional consequences of nucleosome symmetry, we designed an obligate pair of H3 heterodimers, termed H3X and H3Y, allowing us to compare cells with single or double H3 alterations. Our biochemical validation of the heterodimeric X-Y interaction included intra-nucleosomal H3 crosslinking using dimethyl suberimidate (DMS). Here, we ...


Evaluation Of A Method To Measure Hhv-6b Infection In Vitro Based On Cell Size, Aniuska Becerra, Tessa Santoro, Lawrence J. Stern 2018 University of Massachusetts Medical School

Evaluation Of A Method To Measure Hhv-6b Infection In Vitro Based On Cell Size, Aniuska Becerra, Tessa Santoro, Lawrence J. Stern

Open Access Articles

BACKGROUND: Human herpesvirus 6 (HHV-6A and HHV-6B) infection of cell cultures can be measured by different methods, including immunofluorescence microscopy, flow cytometry, or quantification of virus DNA by qPCR. These methods are reliable and sensitive but require long processing times and can be costly. Another method used in the field relies on the identification of enlarged cells in the culture; this method requires little sample processing and is relatively fast. However, visual inspection of cell cultures can be subjective and it can be difficult to establish clear criteria to decide if a cell is enlarged. To overcome these issues, we ...


Wearable Biosensors To Evaluate Recurrent Opioid Toxicity After Naloxone Administration: A Hilbert Transform Approach, Keerthi Kumar. Chintha, Premananda Indic, Brittany Chapman, Edward W. Boyer, Stephanie Carreiro 2018 University of Texas at Tyler

Wearable Biosensors To Evaluate Recurrent Opioid Toxicity After Naloxone Administration: A Hilbert Transform Approach, Keerthi Kumar. Chintha, Premananda Indic, Brittany Chapman, Edward W. Boyer, Stephanie Carreiro

UMass Center for Clinical and Translational Science Supported Publications

Opioid abuse is a rapidly escalating problem in the United States. Effective opioid reversal is achieved with the antidote naloxone, but often does not last as long as the offending opioid, necessitating in-hospital observation. Continuous physiologic monitoring using wearable biosensors represents a potential option to extend monitoring capability outside the clinical setting across the spectrum of opioid abuse including post- naloxone administration. The present study aims to identify the physiologic change that marks the cessation of naloxone's effect. Eleven participants were recruited in the Emergency Department after naloxone administration for an opioid overdose and continuously monitored using a wearable ...


Intensity Inhomogeneity Correction Of Sd-Oct Data Using Macular Flatspace, Andrew Lang, Aaron Carass, Bruno M. Jedynak, Sharon D. Solomon, Peter A. Calabresi, Jerry L. Prince 2018 Johns Hopkins University

Intensity Inhomogeneity Correction Of Sd-Oct Data Using Macular Flatspace, Andrew Lang, Aaron Carass, Bruno M. Jedynak, Sharon D. Solomon, Peter A. Calabresi, Jerry L. Prince

Mathematics and Statistics Faculty Publications and Presentations

Images of the retina acquired using optical coherence tomography (OCT) often suffer from intensity inhomogeneity problems that degrade both the quality of the images and the performance of automated algorithms utilized to measure structural changes. This intensity variation has many causes, including off-axis acquisition, signal attenuation, multi-frame averaging, and vignetting, making it difficult to correct the data in a fundamental way. This paper presents a method for inhomogeneity correction by acting to reduce the variability of intensities within each layer. In particular, the N3 algorithm, which is popular in neuroimage analysis, is adapted to work for OCT data. N3 works ...


Assessment Of Falls On A Medical-Telemetry Unit, Andie Reed 2017 The University of San Francisco

Assessment Of Falls On A Medical-Telemetry Unit, Andie Reed

Master's Projects and Capstones

The purpose of this quality improvement project aimed at reducing falls on a medical-telemetry unit in a large metropolitan Magnet hospital. It was important for the MSN/CNL students to focus on falls because it is not just a concern for this institution, it is a national dilemma that needs to be addressed. Due to the complexities and intricate details of the IRB process, the MSN/CNL students were unable to collect data or further advance their project into the microsystem. Instead, information was attained from the University of San Francisco database to allow the MSN/CNL students to continue ...


Habituation And Dishabituation In The Olfactory Bulb: From Neural Responses To Behavior, Mary Cameron Ogg 2017 University of Tennessee Health Science Center

Habituation And Dishabituation In The Olfactory Bulb: From Neural Responses To Behavior, Mary Cameron Ogg

Theses and Dissertations (ETD)

Habituation and dishabituation modulate the neural resources and behavioral significance allocated to incoming stimuli across the sensory systems. The purpose of the research presented in this dissertation was to characterize these processes in the mouse olfactory bulb (OB) and to determine if OB acetylcholine (ACh) has a role in physiological and behavioral olfactory dishabituation. Calcium imaging was used to determine the timecourse and magnitude of habituation in different parts of the OB during and after a prolonged odor presentation. Widefield imaging of the dendritic, or glomerular, response of OB output cells demonstrated that prolonged odor input habituates glomerular responses during ...


Factors Affecting Study Subject Recruitment And Retention In A Major Depressive Disorder Study, Barbara Karnkowska 2017 University of North Texas Health Science Center at Fort Worth

Factors Affecting Study Subject Recruitment And Retention In A Major Depressive Disorder Study, Barbara Karnkowska

Theses and Dissertations

The purpose of a clinical trial is to demonstrate safety, tolerability and efficacy of investigational medications before receiving FDA approval for medical use. The success of clinical trials heavily relies on quick patient recruitment as well as long-term patient retention throughout the duration of the study. Recruitment and retention have been identified as the most expensive components of research, in some instances consisting of up to 33% of the designated budget spanning from phase I to III trials [3]. In light of the rising costs of pharmaceutical research, it is important to investigate factors implicated in patient recruitment and retention ...


Protocol For Analyzing Protein Ensemble Structures From Chemical Cross-Links Using Dynaxl, Zhou Gong, Zhu Liu, Xu Dong, Yue-He Ding, Meng-Qiu Dong, Chun Tang 2017 Wuhan Institute of Physics and Mathematics of the Chinese Academy of Sciences

Protocol For Analyzing Protein Ensemble Structures From Chemical Cross-Links Using Dynaxl, Zhou Gong, Zhu Liu, Xu Dong, Yue-He Ding, Meng-Qiu Dong, Chun Tang

Open Access Articles

Chemical cross-linking coupled with mass spectroscopy (CXMS) is a powerful technique for investigating protein structures. CXMS has been mostly used to characterize the predominant structure for a protein, whereas cross-links incompatible with a unique structure of a protein or a protein complex are often discarded. We have recently shown that the so-called over-length cross-links actually contain protein dynamics information. We have thus established a method called DynaXL, which allow us to extract the information from the over-length cross-links and to visualize protein ensemble structures. In this protocol, we present the detailed procedure for using DynaXL, which comprises five steps. They ...


Rna Sequencing And Proteomics Approaches Reveal Novel Deficits In The Cortex Of Mecp2-Deficient Mice, A Model For Rett Syndrome, Natasha L. Pacheco, Michael R. Heaven, Leanne M. Holt, David K. Crossman, Kristin J. Boggio, Scott A. Shaffer, Daniel L. Flint, Michelle L. Olsen 2017 University of Alabama, Birmingham

Rna Sequencing And Proteomics Approaches Reveal Novel Deficits In The Cortex Of Mecp2-Deficient Mice, A Model For Rett Syndrome, Natasha L. Pacheco, Michael R. Heaven, Leanne M. Holt, David K. Crossman, Kristin J. Boggio, Scott A. Shaffer, Daniel L. Flint, Michelle L. Olsen

Open Access Articles

BACKGROUND: Rett syndrome (RTT) is an X-linked neurodevelopmental disorder caused by mutations in the transcriptional regulator MeCP2. Much of our understanding of MeCP2 function is derived from transcriptomic studies with the general assumption that alterations in the transcriptome correlate with proteomic changes. Advances in mass spectrometry-based proteomics have facilitated recent interest in the examination of global protein expression to better understand the biology between transcriptional and translational regulation.

METHODS: We therefore performed the first comprehensive transcriptome-proteome comparison in a RTT mouse model to elucidate RTT pathophysiology, identify potential therapeutic targets, and further our understanding of MeCP2 function. The whole cortex ...


Myocardial Infarction In The Wisconsin Longitudinal Study: The Interaction Among Environmental, Health, Social, Behavioural And Genetic Factors, Tina K. Gonzales, James A. Yonker, Vicky Chang, Carol L. Roan, Pamela Herd, Craig S. Atwood 2017 Edith Cowan University

Myocardial Infarction In The Wisconsin Longitudinal Study: The Interaction Among Environmental, Health, Social, Behavioural And Genetic Factors, Tina K. Gonzales, James A. Yonker, Vicky Chang, Carol L. Roan, Pamela Herd, Craig S. Atwood

ECU Publications Post 2013

Objectives This study examined how environmental, health, social, behavioural and genetic factors interact to contribute to myocardial infarction (MI) risk.

Design Survey data collected by Wisconsin Longitudinal Study (WLS), USA, from 1957 to 2011, including 235 environmental, health, social and behavioural factors, and 77 single- nucleotide polymorphisms were analysed for association with MI. To identify associations with MI we utilized recursive partitioning and random forest prior to logistic regression and chi-squared analyses.

Participants 6198 WLS participants (2938 men; 3260 women) who (1) had a MI before 72 years and (2) had a MI between 65 and 72 years.

ResultsIn ...


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