Visual Feedback on the Effects of Temperature, Moisture, Relative Humidity, Solar Radiation, Wind and Precipitation on Growth and Production of Grapes.

Weather conditions such as Temperature, Relative Humidity, Solar Radiation, and wind have reportedly been the primary cause to the significant difference in the growth of grape vines across the world. Past research findings have clearly studied the underlying effects of these weather parameters on the growth of grapes, but minimum work has been done on how to accurately turn this data into useful information. This paper aims at providing an overview on how to manage, analyze, and finally visualize the weather data in a way that is convenient to the farmers and can therefore help in the growth of grapes. The Analysis involves writing a series of code scripts (in C++, Perl, MySQL, LibCurl) to connect to the server, decode the measured data, and upload it to the local database. The data was measured using EMG50 Decagon data loggers from vineyards in Napa, California. The initial visualization of the data includes temperature and moisture excel plots showing different variations of these parameters at different depth levels. It is evident that different kinds of soils retain different amounts of water and there is a general linear trend of moisture and temperature values at various depths. This is an ongoing project, and more advanced techniques are being used to scientifically visualize the data measurements. Techniques like Linear and weighted Interpolation, 3D Visualizations, Using Kernel Density Estimation and other advanced techniques will be applied to accurately visualize these data sets

Visually Analyzing the Impacts of Essential Air Service Funding Decisions

Essential Air Service (EAS) is a U.S. government subsidy program which ensures maintenance of commercial airline services in small deregulated communities. The program’s budget currently is around $250 million annually, which is used as subsidy for airlines to maintain a minimal level of scheduled air service in relatively smaller airports. It is evident that 2% of the FAA budget is being spent to maintain air service in smaller communities, but there is not enough evidence to prove that all the current decisions made by Congress about EAS are advantageous. To understand these decisions, 15 years of data produced by the US Department of Transportation and Bureau of Transportation Statistics needs to be analyzed using an exploratory approach. The goal of our paper is to collect the EAS subsidy data produced by the US Department of Transportation and Bureau of Transportation Statistics and develop a multi-year and multi-location visual analytics tool which uses graphs and user-interaction to make it easier for decision makers to understand and analyze the data. We want to use this visual analytics tool to analyze the EAS funding decisions and determine its impact upon the funded airports, based on changes in factors like per passenger subsidy trends, total number of arriving and departing flights and total amount of freight being transported

Discussions on Increasing the Sustainability of Perennial Crops Through Informed Precision Decision-Making

In order to better understand the struggles and practices of growers in improving sustainability, two one-day workshops were conducted in California in April, 2018. The workshops brought together local growers, academic research groups, local, regional, and state agencies, and sustainability groups to discuss practical ways to increase sustainability, economic, environmental, and community, through the adoption of new technologies (see appendix for a list of attendees). All attendees were knowledgeable about the concept of sustainability in growing perennial crops. For readers who might be less familiar with the concept, here we provide an exemplar definition by the California Sustainable Winegrowing Alliance: “The vision of the Sustainable Winegrowing Program is the long-term sustainability of the California wine community. To place the concept of sustainability into the context of winegrowing, the program defines sustainable winegrowing as growing and winemaking practices that are sensitive to the environment (Environmentally Sound), responsive to the needs and interests of society-at-large (Socially Equitable), and are economically feasible to implement and maintain (Economically Feasible).

A Multi-Scale Correlative Approach for Crowd-Sourced Multi-Variate Spatiotemporal Data

With the increase in community-contributed data availability, citizens and analysts are interested in identifying patterns, trends and correlation within these datasets. Various levels of aggregation are often applied to interpret such large data schemes. Identifying the proper scales of aggregation is a non-trivial task in this exploratory data analysis process. In this paper, we present an integrated visual analytics environment that facilitates the exploration of multivariate categorical spatiotemporal data at multiple spatial scales of aggregation, focusing on citizen-contributed data. We propose a compact visual correlation representation by embedding various statistical measures across different spatial regions to enable users to explore correlations between multiple data categories across different spatial scales. The system provides several scale-sensitive spatial partitioning strategies to examine the sensitivity of correlations at varying spatial extents. To demonstrate the capabilities of our system, we provide several usage scenarios from various domains including citizen-contributed social media (soundscape ecology) data

Cross-referencing social media and public surveillance camera data for disaster response

Physical media (like surveillance cameras) and social media (like Instagram and Twitter) may both be useful in attaining on-the-ground information during an emergency or disaster situation. However, the intersection and reliability of both surveillance cameras and social media during a natural disaster are not fully understood. To address this gap, we tested whether social media is of utility when physical surveillance cameras went off-line during Hurricane Irma in 2017. Specifically, we collected and compared geo-tagged Instagram and Twitter posts in the state of Florida during times and in areas where public surveillance cameras went off-line. We report social media content and frequency and content to determine the utility for emergency managers or first responders during a natural disaster

InnateDB: facilitating systems-level analyses of the mammalian innate immune response

Although considerable progress has been made in dissecting the signaling pathways involved in the innate immune response, it is now apparent that this response can no longer be productively thought of in terms of simple linear pathways. InnateDB (www.innatedb.ca) has been developed to facilitate systems-level analyses that will provide better insight into the complex networks of pathways and interactions that govern the innate immune response. InnateDB is a publicly available, manually curated, integrative biology database of the human and mouse molecules, experimentally verified interactions and pathways involved in innate immunity, along with centralized annotation on the broader human and mouse interactomes. To date, more than 3500 innate immunity-relevant interactions have been contextually annotated through the review of 1000 plus publications. Integrated into InnateDB are novel bioinformatics resources, including network visualization software, pathway analysis, orthologous interaction network construction and the ability to overlay user-supplied gene expression data in an intuitively displayed molecular interaction network and pathway context, which will enable biologists without a computational background to explore their data in a more systems-oriented manner

Antimicrobial resistance among migrants in Europe: a systematic review and meta-analysis

BACKGROUND: Rates of antimicrobial resistance (AMR) are rising globally and there is concern that increased migration is contributing to the burden of antibiotic resistance in Europe. However, the effect of migration on the burden of AMR in Europe has not yet been comprehensively examined. Therefore, we did a systematic review and meta-analysis to identify and synthesise data for AMR carriage or infection in migrants to Europe to examine differences in patterns of AMR across migrant groups and in different settings. METHODS: For this systematic review and meta-analysis, we searched MEDLINE, Embase, PubMed, and Scopus with no language restrictions from Jan 1, 2000, to Jan 18, 2017, for primary data from observational studies reporting antibacterial resistance in common bacterial pathogens among migrants to 21 European Union-15 and European Economic Area countries. To be eligible for inclusion, studies had to report data on carriage or infection with laboratory-confirmed antibiotic-resistant organisms in migrant populations. We extracted data from eligible studies and assessed quality using piloted, standardised forms. We did not examine drug resistance in tuberculosis and excluded articles solely reporting on this parameter. We also excluded articles in which migrant status was determined by ethnicity, country of birth of participants' parents, or was not defined, and articles in which data were not disaggregated by migrant status. Outcomes were carriage of or infection with antibiotic-resistant organisms. We used random-effects models to calculate the pooled prevalence of each outcome. The study protocol is registered with PROSPERO, number CRD42016043681. FINDINGS: We identified 2274 articles, of which 23 observational studies reporting on antibiotic resistance in 2319 migrants were included. The pooled prevalence of any AMR carriage or AMR infection in migrants was 25·4% (95% CI 19·1-31·8; I2 =98%), including meticillin-resistant Staphylococcus aureus (7·8%, 4·8-10·7; I2 =92%) and antibiotic-resistant Gram-negative bacteria (27·2%, 17·6-36·8; I2 =94%). The pooled prevalence of any AMR carriage or infection was higher in refugees and asylum seekers (33·0%, 18·3-47·6; I2 =98%) than in other migrant groups (6·6%, 1·8-11·3; I2 =92%). The pooled prevalence of antibiotic-resistant organisms was slightly higher in high-migrant community settings (33·1%, 11·1-55·1; I2 =96%) than in migrants in hospitals (24·3%, 16·1-32·6; I2 =98%). We did not find evidence of high rates of transmission of AMR from migrant to host populations. INTERPRETATION: Migrants are exposed to conditions favouring the emergence of drug resistance during transit and in host countries in Europe. Increased antibiotic resistance among refugees and asylum seekers and in high-migrant community settings (such as refugee camps and detention facilities) highlights the need for improved living conditions, access to health care, and initiatives to facilitate detection of and appropriate high-quality treatment for antibiotic-resistant infections during transit and in host countries. Protocols for the prevention and control of infection and for antibiotic surveillance need to be integrated in all aspects of health care, which should be accessible for all migrant groups, and should target determinants of AMR before, during, and after migration. FUNDING: UK National Institute for Health Research Imperial Biomedical Research Centre, Imperial College Healthcare Charity, the Wellcome Trust, and UK National Institute for Health Research Health Protection Research Unit in Healthcare-associated Infections and Antimictobial Resistance at Imperial College London

Surgical site infection after gastrointestinal surgery in high-income, middle-income, and low-income countries: a prospective, international, multicentre cohort study

Background: Surgical site infection (SSI) is one of the most common infections associated with health care, but its importance as a global health priority is not fully understood. We quantified the burden of SSI after gastrointestinal surgery in countries in all parts of the world. Methods: This international, prospective, multicentre cohort study included consecutive patients undergoing elective or emergency gastrointestinal resection within 2-week time periods at any health-care facility in any country. Countries with participating centres were stratified into high-income, middle-income, and low-income groups according to the UN's Human Development Index (HDI). Data variables from the GlobalSurg 1 study and other studies that have been found to affect the likelihood of SSI were entered into risk adjustment models. The primary outcome measure was the 30-day SSI incidence (defined by US Centers for Disease Control and Prevention criteria for superficial and deep incisional SSI). Relationships with explanatory variables were examined using Bayesian multilevel logistic regression models. This trial is registered with ClinicalTrials.gov, number NCT02662231. Findings: Between Jan 4, 2016, and July 31, 2016, 13 265 records were submitted for analysis. 12 539 patients from 343 hospitals in 66 countries were included. 7339 (58·5%) patient were from high-HDI countries (193 hospitals in 30 countries), 3918 (31·2%) patients were from middle-HDI countries (82 hospitals in 18 countries), and 1282 (10·2%) patients were from low-HDI countries (68 hospitals in 18 countries). In total, 1538 (12·3%) patients had SSI within 30 days of surgery. The incidence of SSI varied between countries with high (691 [9·4%] of 7339 patients), middle (549 [14·0%] of 3918 patients), and low (298 [23·2%] of 1282) HDI (p < 0·001). The highest SSI incidence in each HDI group was after dirty surgery (102 [17·8%] of 574 patients in high-HDI countries; 74 [31·4%] of 236 patients in middle-HDI countries; 72 [39·8%] of 181 patients in low-HDI countries). Following risk factor adjustment, patients in low-HDI countries were at greatest risk of SSI (adjusted odds ratio 1·60, 95% credible interval 1·05–2·37; p=0·030). 132 (21·6%) of 610 patients with an SSI and a microbiology culture result had an infection that was resistant to the prophylactic antibiotic used. Resistant infections were detected in 49 (16·6%) of 295 patients in high-HDI countries, in 37 (19·8%) of 187 patients in middle-HDI countries, and in 46 (35·9%) of 128 patients in low-HDI countries (p < 0·001). Interpretation: Countries with a low HDI carry a disproportionately greater burden of SSI than countries with a middle or high HDI and might have higher rates of antibiotic resistance. In view of WHO recommendations on SSI prevention that highlight the absence of high-quality interventional research, urgent, pragmatic, randomised trials based in LMICs are needed to assess measures aiming to reduce this preventable complication

Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples

Funder: NCI U24CA211006Abstract: The Cancer Genome Atlas (TCGA) and International Cancer Genome Consortium (ICGC) curated consensus somatic mutation calls using whole exome sequencing (WES) and whole genome sequencing (WGS), respectively. Here, as part of the ICGC/TCGA Pan-Cancer Analysis of Whole Genomes (PCAWG) Consortium, which aggregated whole genome sequencing data from 2,658 cancers across 38 tumour types, we compare WES and WGS side-by-side from 746 TCGA samples, finding that ~80% of mutations overlap in covered exonic regions. We estimate that low variant allele fraction (VAF < 15%) and clonal heterogeneity contribute up to 68% of private WGS mutations and 71% of private WES mutations. We observe that ~30% of private WGS mutations trace to mutations identified by a single variant caller in WES consensus efforts. WGS captures both ~50% more variation in exonic regions and un-observed mutations in loci with variable GC-content. Together, our analysis highlights technological divergences between two reproducible somatic variant detection efforts