Processing genome-wide association studies within a repository of heterogeneous genomic datasets

Background Genome Wide Association Studies (GWAS) are based on the observation of genome-wide sets of genetic variants – typically single-nucleotide polymorphisms (SNPs) – in different individuals that are associated with phenotypic traits. Research efforts have so far been directed to improving GWAS techniques rather than on making the results of GWAS interoperable with other genomic signals; this is currently hindered by the use of heterogeneous formats and uncoordinated experiment descriptions. Results To practically facilitate integrative use, we propose to include GWAS datasets within the META-BASE repository, exploiting an integration pipeline previously studied for other genomic datasets that includes several heterogeneous data types in the same format, queryable from the same systems. We represent GWAS SNPs and metadata by means of the Genomic Data Model and include metadata within a relational representation by extending the Genomic Conceptual Model with a dedicated view. To further reduce the gap with the descriptions of other signals in the repository of genomic datasets, we perform a semantic annotation of phenotypic traits. Our pipeline is demonstrated using two important data sources, initially organized according to different data models: the NHGRI-EBI GWAS Catalog and FinnGen (University of Helsinki). The integration effort finally allows us to use these datasets within multisample processing queries that respond to important biological questions. These are then made usable for multi-omic studies together with, e.g., somatic and reference mutation data, genomic annotations, epigenetic signals. Conclusions As a result of our work on GWAS datasets, we enable 1) their interoperable use with several other homogenized and processed genomic datasets in the context of the META-BASE repository; 2) their big data processing by means of the GenoMetric Query Language and associated system. Future large-scale tertiary data analysis may extensively benefit from the addition of GWAS results to inform several different downstream analysis workflows

Comet Machholz (C/2004 Q2): morphological structures in the inner coma and rotation parameters

Extensive observations of comet C/2004 Q2 (Machholz) were carried out between August 2004 and May 2005. The images obtained were used to investigate the comet's inner coma features at resolutions between 350 and 1500 km/pixel. A photometric analysis of the dust outflowing from the comet's nucleus and the study of the motion of the morphological structures in the inner coma indicated that the rotation period of the nucleus was most likely around 0.74 days. A thorough investigation of the inner coma morphology allowed us to observe two main active sources on the comet's nucleus, at a latitude of +85{\deg} \pm 5{\deg} and +45{\deg} \pm 5{\deg}, respectively. Further sources have been observed, but their activity ran out quite rapidly over time; the most relevant was at latcom. = 25{\deg} \pm 5{\deg}. Graphic simulations of the geometrical conditions of observation of the inner coma were compared with the images and used to determine a pole orientation at RA=95{\deg} \pm 5{\deg}, Dec=+35{\deg} \pm 5{\deg}. The comet's spin axis was lying nearly on the plane of the sky during the first decade of December 2004.Comment: 29 pages, 8 figures, 3 table

Recría de juveniles de Piaractus mesopotamicus (Pacú) en sistema acuapónico

This work aimed to evaluate pacu fish re-breeding in an aquaponic system. 900 juvenile pacu with 10.5 ±3.26 g of initial mean weight were used, at an initial density of 3.3 kg/m3. Mean final weight, final biomass, daily biomass increase, daily weight gained, specific growth rate, and fish survival rate were evaluated. Lettuce was cultivated under the NFT system. The total biomass produced in each cycle, the average number of leaves, the weight of the whole plant, and the percentage relationship between the weight of the aerial part and root were evaluated. The aquaponic system consisted of four  modules located under a 48 m2 greenhouse. The trial lasted 119 days, and three lettuce harvests were carried out. At the end of the trial, the fish reached a final average weight of 98.8 g, a final biomass of 22,233.8 g, a daily biomass increment of 172.9 g/day, a specific growth rate of 2 %/day, and 100 % survival in the four modules. Lettuce obtained an average final biomass of 8,081 g per cycle, 13.4 leaves per plant, 139.3 g/plant, and a percentage ratio between aerial part and root weight of 86.8 and 13.2 %, respectively. The results obtained demonstrate rearing pacu juveniles in aquaponic systems feasibility, obtaining high growth rates and excellent survival levels.El objetivo del presente trabajo fue evaluar la recría de pacú bajo un sistema de cultivo acuapónico. Se utilizaron 900 juveniles con 10,5±3,26 gramos de peso medio inicial, a una densidad inicial de 3,3 kg/m3. Se evaluó peso medio final, biomasa final, incremento de biomasa diario, ganancia diaria de peso, tasa de crecimiento específico y tasa de supervivencia de los peces. Las plantas de lechuga se cultivaron bajo sistema NFT, evaluándose la biomasa total producida en cada ciclo, número promedio de hojas, peso de la planta entera y relación porcentual entre peso de parte aérea y raíz. El sistema acuapónico contó con cuatro módulos individuales, bajo un invernadero de 48 m2 de superficie. El ensayo tuvo una duración total de 119 días, durante los cuales se realizaron tres cosechas totales de lechuga. Al final del ensayo, los peces alcanzaron un peso medio final de 98,8 g, una biomasa final de 22.233,8 g, un incremento de biomasa diario de 172,9 g/día, una tasa de crecimiento de 2%/día y 100% de supervivencia en los cuatro módulos. Los módulos hidropónicos obtuvieron una biomasa final promedio de 8.081 g por ciclo, un número promedio de hojas por planta de 13,4, un peso medio de 139,3 g/planta y una relación porcentual entre peso de parte aérea y raíz de 86,8 y 13,2 %, respectivamente. Los resultados obtenidos demuestran la factibilidad de realizar la recría del pacú en sistema acuapónico, obteniéndose altas tasas de crecimiento y excelentes niveles de supervivencia

Motorcycle Structural Fatigue Monitoring Using Smart Wheels

The paper is devoted to the measurement and to the processing of load spectra of forces and moments acting at the wheel hub of a motorcycle. Smart wheels (SWs) have been specifically developed for the scope. Throughout the paper, the extreme case of a race motorcycle is considered. Accurate load spectra were measured in two race circuits. Standardized load spectra are derived by processing measured data. A way to easily generalize the measured load spectra is proposed for the first time for motorcycles. Several loading conditions, related to the motorcycle straight line motion, cornering, curb hit and gear shift, are identified and extracted from the experimental measures. For each loading condition, by means of simple semi-analytical models (SAMs), a relationship is found between the vertical force on the wheel, the tilt angle of the motorcycle and the remaining forces and moments acting at the wheel hub. Such relationships are nothing else than the standardized load spectra. Additionally, a simple and efficient method based on smart wheels for real-time structural monitoring is proposed. Standardized load spectra prove to provide consistent results even when compared to real-time structural monitoring data. By means of the presented smart wheels, advanced lightweight motorcycle construction is enabled by derivation of standardized load spectra or real time estimation of the damage of structural components

Comet Ikeya-Zhang (C/2002 C1): Determination of the Rotation Period From Obervations of Morphological Structures

High quality CCD images allowed the identification of several morphological structures near the nuclear zone of comet Ikeya-Zhang. The interpretation of these structures led to an estimate of its rotation period

Emergency Department and Out-of-Hospital Emergency System (112-AREU 118) integrated response to Coronavirus Disease 2019 in a Northern Italy centre

Since December 2019, the world has been facing the life-threatening disease, named Coronavirus disease-19 (COVID-19), recognized as a pandemic by the World Health Organization. The response of the Emergency Medicine network, integrating "out-of-hospital" and "hospital" activation, is crucial whenever the health system has to face a medical emergency, being caused by natural or human-derived disasters as well as by a rapidly spreading epidemic outbreak. We here report the Pavia Emergency Medicine network response to the COVID-19 outbreak. The "out-of-hospital" response was analysed in terms of calls, rescues and missions, whereas the "hospital" response was detailed as number of admitted patients and subsequent hospitalisation or discharge. The data in the first 5 weeks of the Covid-19 outbreak (February 21-March 26, 2020) were compared with a reference time window referring to the previous 5 weeks (January 17-February 20, 2020) and with the corresponding historical average data from the previous 5 years (February 21-March 26). Since February 21, 2020, a sudden and sustained increase in the calls to the AREU 112 system was noted (+\u2009440%). After 5 weeks, the number of calls and missions was still higher as compared to both the reference pre-Covid-19 period (+\u200948% and\u2009+\u200910%, respectively) and the historical control (+\u200953% and\u2009+\u200922%, respectively). Owing to the overflow from the neighbouring hospitals, which rapidly became overwhelmed and had to temporarily close patient access, the population served by the Pavia system more than doubled (from 547.251 to 1.135.977 inhabitants,\u2009+\u2009108%). To minimize the possibility of intra-hospital spreading of the infection, a separate "Emergency Department-Infective Disease" was created, which evaluated 1241 patients with suspected infection (38% of total ED admissions). Out of these 1241 patients, 58.0% (n\u2009=\u2009720) were admitted in general wards (n\u2009=\u2009629) or intensive care unit (n\u2009=\u200991). To allow this massive number of admissions, the hospital reshaped many general ward Units, which became Covid-19 Units (up to 270 beds) and increased the intensive care unit beds from 32 to 60. In the setting of a long-standing continuing emergency like the present Covid-19 outbreak, the integration, interaction and team work of the "out-of-hospital" and "in-hospital" systems have a pivotal role. The present study reports how the rapid and coordinated reorganization of both might help in facing such a disaster. AREU-112 and the Emergency Department should be ready to finely tune their usual cooperation to respond to a sudden and overwhelming increase in the healthcare needs brought about by a pandemia like the current one. This lesson should shape and reinforce the future

Tocilizumab for treatment of severe covid-19 patients: Preliminary results from smatteo covid19 registry (smacore)

Objective: This study aimed to assess the role of Tocilizumab therapy (TCZ) in terms of ICU admission and mortality rate of critically ill patients with severe COVID-19 pneumonia. Design: Patients with COVID-19 pneumonia were prospectively enrolled in SMAtteo COvid19 REgistry (SMACORE). A retrospective analysis of patients treated with TCZ matched using propensity score to patients treated with Standard Of Care (SOC) was conducted. Setting: The study was conducted at IRCCS Policlinico San Matteo Hospital, Pavia, Italy, from March 14, 2020 to March 27, 2020. Participants: Patients with a confirmed diagnosis of COVID-19 hospitalized in our institution at the time of TCZ availability. Interventions: TCZ was administered to 21 patients. The first administration was 8 mg/kg (up to a maximum 800 mg per dose) of Tocilizumab intravenously, repeated after 12 h if no side effects were reported after the first dose. Main Outcomes and Measures: ICU admission and 7-day mortality rate. Secondary outcomes included clinical and laboratory data. Results: There were 112 patients evaluated (82 were male and 30 were female, with a median age of 63.55 years). Using propensity scores, the 21 patients who received TCZ were matched to 21 patients who received SOC (a combination of hydroxychloroquine, azithromycin and prophylactic dose of low weight heparin). No adverse event was detected following TCZ administration. This study found that treatment with TCZ did not significantly affect ICU admission (OR 0.11; 95% CI between 0.00 and 3.38; p = 0.22) or 7-day mortality rate (OR 0.78; 95% CI between 0.06 and 9.34; p = 0.84) when compared with SOC. Analysis of laboratory measures showed significant interactions between time and treatment regarding C-Reactive Protein (CRP), alanine aminotransferase (ALT), platelets and international normalized ratio (INR) levels. Variation in lymphocytes count was observed over time, irrespective of treatment. Conclusions: TCZ administration did not reduce ICU admission or mortality rate in a cohort of 21 patients. Additional data are needed to understand the effect(s) of TCZ in treating patients diagnosed with COVID-19