Institutional Repository Workflow from Initial Inquiry to Repository Upload

A workflow flowchart on the verification steps involved in preparation to uploading assets to the University of Connecticut's institutional repository (http://digitalcommons.uconn.edu). This flowchart is geared towards assisting subject liaisons who also serve as series administrators for UConn@DigitalCommons.

Syndromic surveillance at a long term shelter for persons displaced by hurricanes Katrina and Rita conducted by the San Antonio Metropolitan Health District

Background. Beginning September 2, 2005, San Antonio area shelters received approximately 12,700 evacuees from Hurricane Katrina. Two weeks later, another 12,000 evacuees from Hurricane Rita arrived. By mid-October, 2005, the in-shelter population was 1,000 people. There was concern regarding the potential for spread of infectious diseases in the shelter. San Antonio Metropolitan Health District (SAMHD) established a syndromic surveillance system with Comprehensive Health Services (CHS) who provided on-site health care. CHS was in daily contact with SAMHD to report symptoms of concern until the shelter closed December 23, 2005. ^ Study type. The objective of this study was to assess the methods used and describe the practical considerations involved in establishing and managing a syndromic surveillance system, as established by the SAMHD in the long-term shelter clinic maintained by CHS for the hurricane evacuees. ^ Methods. Information and descriptive data used in this study was collected from multiple sources, primarily from the San Antonio Metropolitan Health District’s 2006 Report on Syndromic Surveillance of a Long-Term Shelter by Hausler & Rohr-Allegrini. SAMHD and CHS staff ensured that each clinic visit was recorded by date, demographic information, chief complaint and medical disposition. Logs were obtained daily and subsequently entered into a Microsoft Access database and analyzed in Excel. ^ Results. During a nine week period, 4,913 clinic visits were recorded, reviewed and later analyzed. Repeat visits comprised 93.0% of encounters. Chronic illnesses contributed to 21.7% of the visits. Approximately 54.0% were acute care encounters. Of all encounters, 17.3% had infectious disease potential as primarily gastrointestinal and respiratory syndromes. Evacuees accounted for 86% and staff 14% of all visits to the shelter clinic. There were 782 unduplicated individuals who sought services at the clinic, comprised of 63% (496) evacuees and 36% (278) staff members. Staff were more likely to frequent the clinic but for fewer visits each. ^ Conclusion. The presence of health care services and syndromic surveillance provided the opportunity to recognize, document and intervene in any disease outbreak at this long-term shelter. Constant vigilance allowed SAMHD to inform and reassure concerned people living and working in the shelter and living outside the shelter.^

Systematic interpretation of molecular beacon polymerase chain reaction for identifying rpoB mutations in Mycobacterium tuberculosis isolates with mixed resistant and susceptible bacteria

Detection of multidrug-resistant tuberculosis (MDR-TB), a frequent cause of treatment failure, takes 2 or more weeks to identify by culture. RIF-resistance is a hallmark of MDR-TB, and detection of mutations in the rpoB gene of Mycobacterium tuberculosis using molecular beacon probes with real-time quantitative polymerase chain reaction (qPCR) is a novel approach that takes ≤2 days. However, qPCR identification of resistant isolates, particularly for isolates with mixed RIF-susceptible and RIF-resistant bacteria, is reader dependent and limits its clinical use. The aim of this study was to develop an objective, reader-independent method to define rpoB mutants using beacon qPCR. This would facilitate the transition from a research protocol to the clinical setting, where high-throughput methods with objective interpretation are required. For this, DNAs from 107 M. tuberculosis clinical isolates with known susceptibility to RIF by culture-based methods were obtained from 2 regions where isolates have not previously been subjected to evaluation using molecular beacon qPCR: the Texas–Mexico border and Colombia. Using coded DNA specimens, mutations within an 81-bp hot spot region of rpoB were established by qPCR with 5 beacons spanning this region. Visual and mathematical approaches were used to establish whether the qPCR cycle threshold of the experimental isolate was significantly higher (mutant) compared to a reference wild-type isolate. Visual classification of the beacon qPCR required reader training for strains with a mixture of RIF-susceptible and RIF-resistant bacteria. Only then had the visual interpretation by an experienced reader had 100% sensitivity and 94.6% specificity versus RIF-resistance by culture phenotype and 98.1% sensitivity and 100% specificity versus mutations based on DNA sequence. The mathematical approach was 98% sensitive and 94.5% specific versus culture and 96.2% sensitive and 100% specific versus DNA sequence. Our findings indicate the mathematical approach has advantages over the visual reading, in that it uses a Microsoft Excel template to eliminate reader bias or inexperience, and allows objective interpretation from high-throughput analyses even in the presence of a mixture of RIF-resistant and RIF-susceptible isolates without the need for reader training.^

Application of the general linear model to assess the effect of missing data on bone marrow mononuclear cell therapy with infusion timing and follow-up MRI

With most clinical trials, missing data presents a statistical problem in evaluating a treatment's efficacy. There are many methods commonly used to assess missing data; however, these methods leave room for bias to enter the study. This thesis was a secondary analysis on data taken from TIME, a phase 2 randomized clinical trial conducted to evaluate the safety and effect of the administration timing of bone marrow mononuclear cells (BMMNC) for subjects with acute myocardial infarction (AMI).^ We evaluated the effect of missing data by comparing the variance inflation factor (VIF) of the effect of therapy between all subjects and only subjects with complete data. Through the general linear model, an unbiased solution was made for the VIF of the treatment's efficacy using the weighted least squares method to incorporate missing data. Two groups were identified from the TIME data: 1) all subjects and 2) subjects with complete data (baseline and follow-up measurements). After the general solution was found for the VIF, it was migrated Excel 2010 to evaluate data from TIME. The resulting numerical value from the two groups was compared to assess the effect of missing data.^ The VIF values from the TIME study were considerably less in the group with missing data. By design, we varied the correlation factor in order to evaluate the VIFs of both groups. As the correlation factor increased, the VIF values increased at a faster rate in the group with only complete data. Furthermore, while varying the correlation factor, the number of subjects with missing data was also varied to see how missing data affects the VIF. When subjects with only baseline data was increased, we saw a significant rate increase in VIF values in the group with only complete data while the group with missing data saw a steady and consistent increase in the VIF. The same was seen when we varied the group with follow-up only data. This essentially showed that the VIFs steadily increased when missing data is not ignored. When missing data is ignored as with our comparison group, the VIF values sharply increase as correlation increases.^

Temperaturas óptimas para resembrar especies mesotérmicas sobre céspedes de Cynodon dactylon en el centro-sur de la provincia de Córdoba, Argentina

Los objetivos fueron determinar temperaturas medias de suelo (TMS) y mínimas de aire (TMA) adecuadas para realizar resiembras otoñales; evaluar la tasa de crecimiento (TCC) de Cynodon dactylon (Bermuda) que minimice la competencia con la especie resembrada y el comportamiento de distintas especies mesotérmicas en el centro-sur de la provincia de Córdoba. Se resembró durante 2010 y 2011, en un diseño de parcelas divididas con cinco fechas de siembra (FS) quincenalmente desde principios de marzo, con tres genotipos: Lolium multiflorum cv Axcella, L. perenne y L. perenne cv Excel I. Las temperaturas se midieron entre principios de marzo y hasta que la bermuda entró en dormición, calculando TMA y TMS. En las subparcelas resembradas se registraron calidad visual y cobertura total; además, en la bermuda se calculó la TCC. Las resiembras que lograron valores más altos de calidad visual, cobertura y bajas TCC de la Bermuda, se dieron con TMS entre 18 - 21°C y TMA entre 11,5 - 15,5°C. De acuerdo con los valores medios normales de la región centro-sur de Córdoba, las temperaturas óptimas se observan entre la segunda década de marzo y primera de abril. Los tres genotipos tuvieron comportamientos similares independientemente de la FS utilizada.

Documentation of sediment cores during SONNE Expedition SO228 from the western tropical Pacific

The core descriptions (chapter 7) summarize the most important results of the analysis of each sediment core following procedures applied during ODP/IODP expeditions. All cores were opened, described, and color-scanned. In the core descriptions the first column displays the lithological data that are based on visual analysis of the core and are supplemented by information from binocular and smear slide analyses. The sediment classification largely follows ODP/IODP convention. Lithological names consist of a principal name based on composition, degree of lithification, and/or texture as determined from visual description and microscopic observations. In the structure column the intensity of bioturbation together with individual or special features (turbidites, volcanic ash layers, plant debris, shell fragments, etc.) is shown. The hue and chroma attributes of color were determined by comparison with the Munsell soil color charts and are given in the color column in the Munsell notation. A GretagMacbethTM Spectrolino spectrophotometer was used to measure percent reflectance values of sediment color at 36 wavelength channels over the visible light range (380-730 nm) on all of the cores. The digital reflectance data of the spectrophotometer readings were routinely obtained from the surface (measured in 1 cm steps) of the split cores (archive half). The Spectrolino is equipped with a measuring aperture with folding mechanism allowing an exact positioning on the split core and is connected to a portable computer. The data are directly displayed within the software package Excel and can be controlled simultaneously. From all the color measurements, for each core the red/blue ratio (700 nm/450 nm) and the lightness are shown together with the visual core description. The reflectance of individual wavelengths is often significantly affected by the presence of minor amounts of oxyhydroxides or sulphides. To eliminate these effects, we used the red/blue ratio and lightness.

Experiencia en el laboratorio de matemática mediante el soporte de computadoras

Nuestro propósito es presentar una experiencia desarrollada en el marco del Proyecto de Investigación: El uso de nuevas tecnologías en la enseñanza del cálculo . En él enfocamos el uso de nuevas tecnologías como un modo de superar la metodología habitual de dar las respuestas antes de que surjan las preguntas. Incorporamos el uso de un Laboratorio de Matemática mediante el soporte de computadoras para el que tuvimos en cuenta tanto las aplicaciones de la Matemática como la exigencia actual de un uso crítico, reflexivo y creativo de las TIC dentro del sistema educativo en general y de la Matemática en particular. La experiencia consistió en trabajar en el Laboratorio de Matemática mediante el soporte de computadoras con alumnos de primer año de Ingeniería Civil y Licenciatura en Física. El contenido desarrollado fue: Sucesiones y Series. Los alumnos estaban organizados en comisiones. Les proporcionamos las herramientas para utilizar una planilla de cálculo, Excel, y una Guía de Laboratorio. Ella contenía actividades exploratorias para cuya resolución admitíamos la consulta al docente. Este trabajo se complementaba con la entrega de un informe que mostraba los resultados del trabajo en comisión. La actividad consistió en el armado y estudio de la convergencia de una serie geométrica. La mayoría de las comisiones logró presentar resultados satisfactorios.

Experiencia en el laboratorio de matemática mediante el soporte de computadoras

Nuestro propósito es presentar una experiencia desarrollada en el marco del Proyecto de Investigación: El uso de nuevas tecnologías en la enseñanza del cálculo . En él enfocamos el uso de nuevas tecnologías como un modo de superar la metodología habitual de dar las respuestas antes de que surjan las preguntas. Incorporamos el uso de un Laboratorio de Matemática mediante el soporte de computadoras para el que tuvimos en cuenta tanto las aplicaciones de la Matemática como la exigencia actual de un uso crítico, reflexivo y creativo de las TIC dentro del sistema educativo en general y de la Matemática en particular. La experiencia consistió en trabajar en el Laboratorio de Matemática mediante el soporte de computadoras con alumnos de primer año de Ingeniería Civil y Licenciatura en Física. El contenido desarrollado fue: Sucesiones y Series. Los alumnos estaban organizados en comisiones. Les proporcionamos las herramientas para utilizar una planilla de cálculo, Excel, y una Guía de Laboratorio. Ella contenía actividades exploratorias para cuya resolución admitíamos la consulta al docente. Este trabajo se complementaba con la entrega de un informe que mostraba los resultados del trabajo en comisión. La actividad consistió en el armado y estudio de la convergencia de una serie geométrica. La mayoría de las comisiones logró presentar resultados satisfactorios.