<p dir="ltr">Open-access bioinformatics data enables accessible public health research for a variety of stakeholders, including teachers and low-resourced researchers. This project outlines two case studies utilizing open-access bioinformatics data sets and analysis software as proofs of concept for the types of research projects that can be adapted for workforce development purposes. The first case study is a spatial temporal analysis of Lyme disease rates in the United States from 2008 to 2020 using freely available data from the United States Department of Agriculture and Centers for Disease Control and Prevention to determine how urbanization and other changes in land use have impacted Lyme disease rates over time. The second case study conducts a pangenome analysis using bacteriophage data from the Actinobacteriophage Database to determine conserved gene regions related to host specificity.</p>

Die vorliegende Arbeit untersucht die Auswirkung von reichhaltigen, natürlichen Eingabe- und Ausgabeinformationen in virtuellen Umgebungen in Form von Natural Mapping und Stereoskopie. Dabei steht insbesondere die Kombination der Ein- und Ausgabemodalitäten mit dem damit verbundenen Interaktionsgegenstand im Fokus. Auf Basis von mentalen Modellen werden Transferprozesse von Wissen und Fertigkeiten bezüglich realer Handlungen auf virtuelle Handlungen angenommen. Diese resultieren in einer potenziell höheren User Experience und Performance bei der Interaktion. Spatial Mapping wird als Konzept der räumlichen Übereinstimmung von Wahrnehmungsräumen der Ein- und Ausgabeinformationen eingeführt und damit als holistische Erweiterung von Natural Mapping verstanden. Spatial Mapping bezeichnet in der vorliegenden Arbeit den Grad der Verknüpfung der physikalischen und virtuellen Umgebung, sodass Nutzer im Idealfall eine isomorphe Abbildung der beiden Wahrnehmungsräume erfahren und notwendige Transformationsprozesse für die Verarbeitung der virtuellen Umgebung minimiert werden können. Im Resultat stehen mehr kognitive Ressourcen für andere Inhalte zur Verfügung. Auf Basis des Spatial-Mapping-Ansatzes wurde ein Pfadmodell konstruiert, das experimentell überprüft wurde. In zwei Experimenten wurden Effekte von Natural Mapping und Stereoskopie in Szenarien mit hohem Spatial Mapping untersucht. Das erste Experiment nutzte dafür ein kommerzielles Computerspiel, bei dem Spatial Mapping für die Interaktion nicht handlungsrelevant war. Beim zweiten Experiment kam ein Virtual-Reality-Simulator zum Einsatz, bei dessen Aufgabenstellung Nutzer vom hohen Spatial Mapping deutlich profitieren konnten. Meist wird Stereoskopie auf existierende mediale Inhalte angewendet, ohne die Inhalte entsprechend darauf anzupassen. Diese Vorgehensweise lässt sich sowohl bei kommerziellen Computerspielen als auch in der Filmindustrie beobachten. Die Experimente zeigen, dass Stereoskopie keinen Einfluss auf UX und Performance hat, wenn das verfügbare Spatial Mapping für den Interaktionsgegenstand nicht handlungsrelevant ist. Die Arbeit diskutiert den Einsatz von Stereoskopie und Natural Mapping in Abhängigkeit des verwendeten Interaktionsgegenstandes und liefert damit einen Erklärungsansatz, der Eingabe- und Ausgabemodalitäten kombiniert betrachtet.:1. Einführung: Spatial Mapping in virtuellen Umgebungen 2. User Experience und Zustände fokussierter Aufmerksamkeit 3. Two Step Process Model of Spatial Presence Formation 4. Stereoskopie in virtuellen Umgebungen 5. Natural Mapping in virtuellen Umgebungen 6. Spatial Mapping von Wahrnehmungsräumen 7. Experiment 1: Spatial Mapping bei niedriger Task Adequacy 8. Experiment 2: Spatial Mapping bei hoher Task Adequacy 9. Fazit und Ausblick

Analyses of nuclear reactor safety have increasingly required coupling of full three dimensional neutron kinetics (NK) core models with system transient thermal–hydraulics (TH) codes.  In order to produce results within a reasonable computing time, the coupled codes use two different spatial description of the reactor core.  The TH code uses few, typically 5 to 20 TH channels, which represent the core.  The NK code uses explicit one node for each fuel assembly.  Therefore, a spatial mapping of a coarse grid TH and a fine grid NK domain is necessary.  However, improper mappings may result in loss of valuable information, thus causing inaccurate prediction of safety parameters. The purpose of this thesis is to study the effectiveness of spatial coupling (channel refinement and spatial mapping) and develop recommendations for NK/TH mapping in simulation of safety transients.  Additionally, sensitivity of stability (measured by Decay Ratio and Frequency) to the different types of mapping schemes, is analyzed against OECD/NEA Ringhals–1 Stability Benchmark data. The research methodology consists of spatial coupling convergence study, by increasing the number of TH channels and varying mapping approaches, up to and including the reference case.  The reference case consists of one-to-one mapping: one TH channel per one fuel assembly.  The comparisons of the results are done for steady–state and transient results.  In this thesis mapping (spatial coupling) definition is formed and all the existing mapping approaches were gathered, analyzed and presented.  Additionally, to increase the efficiency and applicability of spatial mapping convergence, a new mapping methodology has been proposed.  The new mapping approach is based on hierarchical clustering method; the method of unsupervised learning that is adopted by many researchers in many different scientific fields, thanks to its flexibility and robustness.  The proposed new mapping method turns out to be very successful for spatial coupling problem and can be fully automatized allowing for significant time reduction in mapping convergence study. The steady–state results obtained from three different plant models for all the investigated cases are presented.  All models achieved well converged steady–state and local parameters were compared and it was concluded that solid basis for further transient analysis was found.  Analyzing the mapping performance, the best predictions for steady–state conditions are the mappings that include the power peaking factor feature alone or with any combination of other features.  Additionally it is of value to keep the core symmetry (symmetry feature).  The big part of this research is devoted to transient analysis.  The selection of transients was done such that it covers a wide range of transients and gathered knowledge may be used for other types of transients.  As a representative of a local perturbation, Control Rod Drop Accident was chosen.  A specially prepared Feedwater Transient was investigated as a regional perturbation and a Turbine Trip is an example of a global one.  In the case of local perturbation, it has been found that a number of TH channels is less important than the type of mapping, so a high number of TH channels does not guarantee improved results.  To avoid unnecessary averaging and to obtain the best prediction, hot channel and core zone where accident happens should be always separated from the rest.  The best performance is achieved with mapping according power peaking factors, and therefore this one is recommended for such type of perturbation. The regional perturbation has been found to be more challenging than the others.  This kind of perturbation is strongly dependent on mapping type that affects the power increase rate, SCRAM time, onset of instability, development of limit cycle, etc.  It has been also concluded that a special effort is needed for input model preparation.   In contrast to the regional perturbation, the global perturbation is found to be the least demanding transient.  Here, the number of TH channels and type of mapping do not have significant impact on average plant behaviour – general plant response is always well recreated.  A special effort has also been paid to investigate the core stability performance, in both global and regional mode.  It has been found that in case of unstable cores, a low number of TH channels significantly suppresses the instability.  For these cases number of TH channels is very important and therefore at least half of the core has to be modeled to have a confidence in predicted DR and FR.  In case of regional instability in order to get correct performance of out-of-phase oscillations, it is recommended to use full-scale model.  If this is not possible, the mapping which is a mixture of 1st power mode and power peaking factors, should be used. The general conclusions and recommendations are summarized at the end of this thesis.  Development of these recommendations was one of the purposes of this investigation and they should be taken into consideration while designing new coupled TH/NK models and choosing mapping strategy for a new transient analysis. / <p>QC 20130516</p>

Studies demonstrate neuro-retinal damage in patients with diabetes and no clinically visible diabetic retinopathy. It is unknown which retinal regions are most vulnerable to diabetes. We hypothesized that the standard and slow-flash (sf-) multifocal electroretinogram (mfERG) and adaptive optics (AO) imaging will localize retinal regions of vulnerability. Fifty-five adolescents with diabetes and 54 controls underwent mfERG testing to isolate predominately retinal bipolar cell activity and sf-mfERG testing to isolate three oscillatory potentials (OPs) from intraretinal amacrine and interplexiform cells. Greatest mfERG delays were in the superior temporal quadrant and at 5°-10° eccentricity. Greatest sf-mfERG delays were found at different eccentricities for each OP. Twenty adolescents with diabetes and 14 controls underwent AO imaging. No significant differences in cone photoreceptor density were found; however, patients showed a trend towards reduced density in the superior nasal region. Inner retinal structures may be more susceptible to damage by diabetes than outer retinal structures.

Studies demonstrate neuro-retinal damage in patients with diabetes and no clinically visible diabetic retinopathy. It is unknown which retinal regions are most vulnerable to diabetes. We hypothesized that the standard and slow-flash (sf-) multifocal electroretinogram (mfERG) and adaptive optics (AO) imaging will localize retinal regions of vulnerability. Fifty-five adolescents with diabetes and 54 controls underwent mfERG testing to isolate predominately retinal bipolar cell activity and sf-mfERG testing to isolate three oscillatory potentials (OPs) from intraretinal amacrine and interplexiform cells. Greatest mfERG delays were in the superior temporal quadrant and at 5°-10° eccentricity. Greatest sf-mfERG delays were found at different eccentricities for each OP. Twenty adolescents with diabetes and 14 controls underwent AO imaging. No significant differences in cone photoreceptor density were found; however, patients showed a trend towards reduced density in the superior nasal region. Inner retinal structures may be more susceptible to damage by diabetes than outer retinal structures.

Since the earliest reported cases of HIV/AIDS probably in 1959 in Africa, there has been a consistent progression in the new HIV/AIDS infection cases. In South Africa, Gauteng, records one of the highest HIV/AIDS prevalence rates in the country. The Department of Health (DOH) South Africa conducts ongoing studies on HIV/AIDS at provincial levels; these studies monitor the prevalence of HIV/AIDS amongst pregnant women attending antenatal clinics, as a tool for determining and monitoring the prevalence, trends, patterns and spread of the disease in the general population. This study analyses sentinel and spatial data collected from the (DOH) and Statistics South Africa (StatsSA) respectively, and depicts them in the form of spatial maps, and then critically analyses the spatial patterns that occur. The research findings would hopefully contribute to the overall knowledge of HIV/AIDS and provide framework and relevant literature for further investigation. / Geography / M.Sc. (Geography)

Since the earliest reported cases of HIV/AIDS probably in 1959 in Africa, there has been a consistent progression in the new HIV/AIDS infection cases. In South Africa, Gauteng, records one of the highest HIV/AIDS prevalence rates in the country. The Department of Health (DOH) South Africa conducts ongoing studies on HIV/AIDS at provincial levels; these studies monitor the prevalence of HIV/AIDS amongst pregnant women attending antenatal clinics, as a tool for determining and monitoring the prevalence, trends, patterns and spread of the disease in the general population. This study analyses sentinel and spatial data collected from the (DOH) and Statistics South Africa (StatsSA) respectively, and depicts them in the form of spatial maps, and then critically analyses the spatial patterns that occur. The research findings would hopefully contribute to the overall knowledge of HIV/AIDS and provide framework and relevant literature for further investigation. / Geography / M.Sc. (Geography)