Observations and Laboratory Simulations of Tornadoes in Complex Topographical Regions

Aerial photos taken along the damage paths of the Joplin, MO, and Tuscaloosa-Birmingham, AL, tornadoes of 2011 captured and preserved several unique patterns of damage. In particular, a few distinct tree-fall patterns were noted along the Tuscaloosa-Birmingham tornado track that appeared highly influenced by the underlying topography. One such region was the focus of a damage survey and motivated laboratory vortex simulations with a 3-D foam representation of the underlying topography, in addition to simulations performed with idealized 2D topographic features, using Iowa State University\u27s tornado simulator. The purpose of this dissertation is to explore various aspects related to the interaction of a tornado or a tornado-like vortex with its underlying topography. Three topics are examined: 1) Analysis of tornado-induced tree-fall using aerial photography from the Joplin, MO, and Tuscaloosa-Birmingham, AL, tornadoes of 2011, 2) Laboratory investigation of topographical influences on a simulated tornado-like vortex, and 3) On the use of non-standard EF-scale damage indicators to categorize tornadoes

CASAM: Collaborative Human-machine Annotation of Multimedia.

The CASAM multimedia annotation system implements a model of cooperative annotation between a human annotator and automated components. The aim is that they work asynchronously but together. The system focuses upon the areas where automated recognition and reasoning are most effective and the user is able to work in the areas where their unique skills are required. The system’s reasoning is influenced by the annotations provided by the user and, similarly, the user can see the system’s work and modify and, implicitly, direct it. The CASAM system interacts with the user by providing a window onto the current state of annotation, and by generating requests for information which are important for the final annotation or to constrain its reasoning. The user can modify the annotation, respond to requests and also add their own annotations. The objective is that the human annotator’s time is used more effectively and that the result is an annotation that is both of higher quality and produced more quickly. This can be especially important in circumstances where the annotator has a very restricted amount of time in which to annotate the document. In this paper we describe our prototype system. We expand upon the techniques used for automatically analysing the multimedia document, for reasoning over the annotations generated and for the generation of an effective interaction with the end-user. We also present the results of evaluations undertaken with media professionals in order to validate the approach and gain feedback to drive further research

Fine-Scale Mapping of the 4q24 Locus Identifies Two Independent Loci Associated with Breast Cancer Risk

Background: A recent association study identified a common variant (rs9790517) at 4q24 to be associated with breast cancer risk. Independent association signals and potential functional variants in this locus have not been explored. Methods: We conducted a fine-mapping analysis in 55,540 breast cancer cases and 51,168 controls from the Breast Cancer Association Consortium. Results: Conditional analyses identified two independent association signals among women of European ancestry, represented by rs9790517 [conditional P = 2.51 × 10−4; OR, 1.04; 95% confidence interval (CI), 1.02–1.07] and rs77928427 (P = 1.86 × 10−4; OR, 1.04; 95% CI, 1.02–1.07). Functional annotation using data from the Encyclopedia of DNA Elements (ENCODE) project revealed two putative functional variants, rs62331150 and rs73838678 in linkage disequilibrium (LD) with rs9790517 (r2 ≥ 0.90) residing in the active promoter or enhancer, respectively, of the nearest gene, TET2. Both variants are located in DNase I hypersensitivity and transcription factor–binding sites. Using data from both The Cancer Genome Atlas (TCGA) and Molecular Taxonomy of Breast Cancer International Consortium (METABRIC), we showed that rs62331150 was associated with level of expression of TET2 in breast normal and tumor tissue. Conclusion: Our study identified two independent association signals at 4q24 in relation to breast cancer risk and suggested that observed association in this locus may be mediated through the regulation of TET2. Impact: Fine-mapping study with large sample size warranted for identification of independent loci for breast cancer risk

An Investigation of Local and National NWS Warning Outbreaks for Severe Convective Events

The National Weather Service (NWS) is charged with the responsibility of issuing severe weather warnings for the public whenever life and property may be in danger. During severe convective events, the NWS issues severe thunderstorm, tornado, and flash flood warnings. This study solely examines severe thunderstorm and tornado warnings conveying threats for wind, hail, and tornadoes. Since 1 October 2007, the NWS has issued storm-based warnings, which cover smaller areas than the previous county-based system. Situational awareness and appropriate staffing levels are necessary to make warning operations successful within a NWS Weather Forecast Office (WFO). If storm coverage and severity are great enough, warning outbreaks can occur in which an NWS WFO has an anomalously high number of warnings valid at the same time—covering large portions of their areas of responsibility. In the top cases, there have been ≥10 warnings in effect at the same time within a county warning area, and ≥30 across the country. A dichotomy exists between the environments that are associated with local and national tornado warning and severe thunderstorm warning outbreaks. Tornado warning outbreaks occur with high-end supercellular storm modes in high convective available potential energy (CAPE) and shear profiles. These events are often identified by the Storm Prediction Center as moderate or high risk with particularly dangerous situation tornado watches issued. Meanwhile, severe thunderstorm warning outbreaks transpire in mostly slight or enhanced risk areas with modest CAPE and low shear, which produce mainly pulse and linear thunderstorms. Verification statistics of these warnings indicate poorer performance compared to national averages—whether on local or national scales—with lower critical success index scores and higher false alarm ratios, although most events are warned during these outbreaks

Evaluation of Near Real-Time Preliminary Tornado Damage Paths

The ability to preliminarily diagnose areas damaged by a tornado is examined using both a manual and an automated approach. The manual method consists of using Weather Surveillance Radar-1988 Doppler base data to track radar-indicated centroids of low-level rotation over the entirety of a tornado event. The automated method utilizes 0.2- and 3.6-km AGL azimuthal shear from the Multi-Radar Multi-Sensor system to link together a series of strong azimuthal shear clusters and create a proposed damage path polygon. The quality of each method's diagnosis is evaluated using traditional verification metrics derived from an object-based geospatial verification technique. These metrics indicate that the preliminary damage paths from the manual method better detect damaged areas with less false area denoted, compared to preliminary damage paths from the automated method. However, the preliminary damage paths from all methods fall short of detecting the entirety of damaged areas, and they also denote large areas in the damage path vicinity that were not affected. Potential avenues for future research and applications are described

Reporting guidelines for human microbiome research: the STORMS checklist

The particularly interdisciplinary nature of human microbiome research makes the organization and reporting of results spanning epidemiology, biology, bioinformatics, translational medicine and statistics a challenge. Commonly used reporting guidelines for observational or genetic epidemiology studies lack key features specific to microbiome studies. Therefore, a multidisciplinary group of microbiome epidemiology researchers adapted guidelines for observational and genetic studies to culture-independent human microbiome studies, and also developed new reporting elements for laboratory, bioinformatics and statistical analyses tailored to microbiome studies. The resulting tool, called 'Strengthening The Organization and Reporting of Microbiome Studies' (STORMS), is composed of a 17-item checklist organized into six sections that correspond to the typical sections of a scientific publication, presented as an editable table for inclusion in supplementary materials. The STORMS checklist provides guidance for concise and complete reporting of microbiome studies that will facilitate manuscript preparation, peer review, and reader comprehension of publications and comparative analysis of published results. The STORMS tool provides guidance for concise and complete reporting of microbiome studies to facilitate manuscript preparation, peer review, reader comprehension of publications, and comparative analysis of published results

Measurement of charm fragmentation fractions in photoproduction at HERA

The production of D^0, D^*+, D^+, D_s+ and Lambda_c^+ charm hadrons and their antiparticles in ep scattering at HERA has been studied with the ZEUS detector, using a total integrated luminosity of 372 pb^-1. The fractions of charm quarks hadronising into a particular charm hadron were derived. In addition, the ratio of neutral to charged D-meson production rates, the fraction of charged D mesons produced in a vector state, and the stangeness-suppression factor have been determined. The measurements have been performed in the photoproduction regime. The charm hadrons were reconstructed in the range of transverse momentum p_T >3.8 GeV and pseudorapidity |eta|<1.6. The charm fragmentation fractions are compared to previous results from HERA and from e+e-experiments. The data support the hypothesis that fragmentation is independent of the production process

Identification of seven new prostate cancer susceptibility loci through a genome-wide association study

Prostate cancer (PrCa) is the most frequently diagnosed male cancer in developed countries. To identify common PrCa susceptibility alleles, we have previously conducted a genome-wide association study in which 541, 129 SNPs were genotyped in 1,854 PrCa cases with clinically detected disease and 1,894 controls. We have now evaluated promising associations in a second stage, in which we genotyped 43,671 SNPs in 3,650 PrCa cases and 3,940 controls, and a third stage, involving an additional 16,229 cases and 14,821 controls from 21 studies. In addition to previously identified loci, we identified a further seven new prostate cancer susceptibility loci on chromosomes 2, 4, 8, 11, and 22 (P=1.6×10−8 to P=2.7×10−33)