Data-driven Flood Emulation: Speeding up Urban Flood Predictions by Deep Convolutional Neural Networks

Computational complexity has been the bottleneck of applying physically-based simulations on large urban areas with high spatial resolution for efficient and systematic flooding analyses and risk assessments. To address this issue of long computational time, this paper proposes that the prediction of maximum water depth rasters can be considered as an image-to-image translation problem where the results are generated from input elevation rasters using the information learned from data rather than by conducting simulations, which can significantly accelerate the prediction process. The proposed approach was implemented by a deep convolutional neural network trained on flood simulation data of 18 designed hyetographs on three selected catchments. Multiple tests with both designed and real rainfall events were performed and the results show that the flood predictions by neural network uses only 0.5 % of time comparing with physically-based approaches, with promising accuracy and ability of generalizations. The proposed neural network can also potentially be applied to different but relevant problems including flood predictions for urban layout planning

Association of high risk human papillomavirus and breast cancer : a UK based study

Infection by human papillomaviruses (HPVs) has been implicated in the aetiology of a variety of cancers. Studies evaluating the presence of HPVs in breast cancer (BC) have generated considerable controversy. To date, most studies have focused on the presence of viral DNA in BC; however there are important gaps in evidencing the role of HPV persistence in the invasiveness of BC. While these studies have been conducted in several countries, none, on the presence and biological activity of high risk (HR) HPV in BC has been done in the UK. Hence, we aimed to investigate these gaps by screening a total of 110 fresh breast tissue specimens from UK patients for the presence of twelve HR-HPV types DNA using PCR and Sanger sequencing. Samples positive for HPV-DNA were screened for viral oncoprotein expression using western blot and dot blot. Data obtained showed the presence of HR-HPVs in 42% of breast tissues of which the viral activity was only confirmed in a number of invasive carcinomas (5/26). This finding, the first to report in the UK, suggests that the selective expression of viral oncoprotein in invasive cases may propose a role for HR-HPVs in the development of some types of BC

Transferrin-Associated Lipoplexes as Gene Delivery Systems: Relevance of Mode of Preparation and Biophysical Properties

Abstract The successful application of gene therapy depends highly on understanding the properties of gene carriers and their correlation with the ability to mediate transfection. An important parameter that has been described to improve transfection mediated by cationic liposomes involves association of ligands to cationic liposome–DNA complexes (lipoplexes). In this study, ternary complexes composed of 1,2-dioleoyl-3-(trimethylammonium) propane:cholesterol, plasmid DNA and transferrin (Tf, selected as a paradigm of a ligand) were prepared under various conditions, namely, in medium with different ionic strengths (HEPES-buffered saline [HBS] or dextrose), at different lipid/DNA (+/–) charge ratios and using different modes for component addition. We investigated the effect of these formulation parameters on transfection (in the absence and presence of serum), size of the complexes, degree of DNA protection and extent of their association with cells (in terms of both lipid and DNA). Our results show that all the tested parameters influenced to some extent the size of the complexes and their capacity to protect the carried genetic material, as well as the levels of cell association and transfection. The best transfection profile was observed for ternary complexes (Tf-complexes) prepared in high ionic strength solution (HBS), at charge ratios close to neutrality and according to the following order of component addition: cationic liposomes–Tf–DNA. Interestingly, in contrast to what was found for dextrose–Tf-complexes, transfection mediated by HBS-Tf-complexes in the presence of serum was highly enhanced

Optimizing Large-Scale Biodiversity Sampling Effort: Toward an Unbalanced Survey Design: Toward an Unbalanced Survey Design

Acquiring marine biodiversity data is difficult, costly, and time consuming, making it challenging to understand the distribution and abundance of lifei n the ocean. Historically, approaches to biodiversity sampling over large geographic scales have advocated for equivalent effort across multiple sites to minimize comparative bias. When effort cannot be equalized, techniques such as rarefaction have been applied to minimize biases by reverting diversity estimates to equivalent numbers of samples or individuals. This often results in oversampling and wasted resources or inaccurately characterized communities due to undersampling. How, then, can we better determine an optimal survey design for characterizing species richness and community composition across a range of conditions and capacities without compromising taxonomic resolution and statistical power? Researchers in the Marine Biodiversity Observation Network Pole to Pole of the Americas (MBON Pole to Pole) are surveying rocky shore macroinvertebrates and algal communities spanning ~107° of latitude and 10 biogeographic ecoregions to address this question. Here, we apply existing techniques in the form of fixed-coverage subsampling and a complementary multivariate analysis to determine the optimal effort necessary for characterizing species richness and community composition across the network sampling sites. We show that oversampling for species richness varied between ~20% and 400% at over half of studied areas, while some locations were under sampled by up to 50%. Multivariate error analysis also revealed that most of the localities were oversampled by several-fold for benthic community composition. From this analysis, we advocate for an unbalanced sampling approach to support field programs in the collection of high-quality data, where preliminary information is used to set the minimum required effort to generate robust values of diversity and composition on a site-to-site basis. As part of this recommendation, we provide statistical tools in the open-source R statistical software to aid researchers inimplementing optimization strategies and expanding the geographic footprint or sampling frequency of regional biodiversity survey programs.Fil: Montes, Enrique. NOAA Atlantic Oceanographic and Meteorological Laboratory; Estados UnidosFil: Lefcheck, Jonathan. Charles Darwin Foundation Santa Cruz; EcuadorFil: Bigatti, Gregorio. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Centro Nacional Patagónico. Instituto de Biología de Organismos Marinos; Argentina. Universidad Nacional de la Patagonia "San Juan Bosco"; Argentina. Universidad Espíritu Santo; EcuadorFil: Guerra-Castro, Edlin. Universidad Nacional Autónoma de México; MéxicoFil: Klein, Eduardo. Universidad Simón Bolívar; VenezuelaFil: Kavanaugh, Maria T.. Oregon State University; Estados UnidosFil: de Azevedo Mazzuco, Ana Carolina. Universidade Federal do Espírito Santo; BrasilFil: Cordeiro, Cesar A.M.M.. Universidade Federal do Rio de Janeiro; BrasilFil: Simoes, Nuno. Universidad Nacional Autónoma de México; México. Texas A&M University-Corpus Christi; Estados UnidosFil: Macaya, Erasmo C.. Universidad de Concepción; ChileFil: Moity, Nicolas. Charles Darwin Foundation; EcuadorFil: Londoño-Cruz, Edgardo. Universidad del Valle; ColombiaFil: Helmuth, Brian. Northeastern University; Estados UnidosFil: Choi, Francis. Northeastern University; Estados UnidosFil: Soto, Eulogio H.. Universidad de Valparaíso; ChileFil: Miloslavich, Patricia. University of Delaware; Estados UnidosFil: Muller-Karger, Frank E.. University of South Florida; Estados Unido

Precision measurement of the structure of the CMS inner tracking system using nuclear interactions

The structure of the CMS inner tracking system has been studied using nuclear interactions of hadrons striking its material. Data from proton-proton collisions at a center-of-mass energy of 13 TeV recorded in 2015 at the LHC are used to reconstruct millions of secondary vertices from these nuclear interactions. Precise positions of the beam pipe and the inner tracking system elements, such as the pixel detector support tube, and barrel pixel detector inner shield and support rails, are determined using these vertices. These measurements are important for detector simulations, detector upgrades, and to identify any changes in the positions of inactive elements