The ASTARTE Paleotsunami Deposits data base – web-based references for tsunami research in the NEAM region

EU project ASTARTE aimed at developing a higher level of tsunami hazard assessment in the North-Eastern Atlantic, the Mediterranean and connected seas (NEAM) region by a combination of field work, experimental work, numerical modeling and technical development. The project was a cooperative work of 26 institutes from 16 countries and linked together the description of past tsunamigenic events, the identification and characterization of tsunami sources, the calculation of the impact of such events, and the development of adequate resilience and risks mitigation strategies (http://www.astarte-project.eu/). Within ASTARTE, a web-based database on Paleotsunami Deposits in the NEAM area was created with the purpose to be the future information repository for tsunami research in the broad region. The aim of the project is the integration of every existing official scientific reports and peer reviewed papers on this topic. The database, which archives information and detailed data crucial for tsunami modeling, will be updated on new entries every 12 months. A relational database managed by ArcGIS for Desktop 10.x software has been implemented. One of the final goals of the project is the public sharing of the archived dataset through a web-based map service that will allow visualizing, querying, analyzing, and interpreting the dataset. The interactive map service is hosted by ArcGIS Online and will deploy the cloud capabilities of the portal. Any interested users will be able to access the online GIS resources through any Internet browser or specific apps that run on desktop machines, smartphones, or tablets and will be able to use the analytical tools, key tasks, and workflows of the service. We will present the database structure (characterized by the presence of two main tables: the Site table and the Event table) and topics as well as their ArcGIS Online version. To date, a total of 151 sites and 220 tsunami evidence have been recorded within the ASTARTE database. The ASTARTE Paleotsunami Deposits database – NEAM region is now available online at the address http://arcg.is/1CWz0. The research leading to these results has received funding from the European Union's Seventh Framework Programme (FP7/2007-2013) under grant agreement n° 603839 (Project ASTARTE - Assessment, Strategy and Risk Reduction for Tsunamis in Europe).PublishedNew Orleans, USA5T. Modelli di pericolosità sismica e da maremot

Background risk and quantum calculus

Abstract Infinitesimal calculus is heavily used in decision making analysis. This paper demonstrates that the application of quantum calculus in analysing preferences choice directly introduces background risk and its effects on risk-aversion, subjective probabilities and moment preferences. Quantum calculus provides another approach to the mathematical treatment of decision making, namely analysis of utility preferences

The ASTARTE Paleotsunami and Mass Transport Deposits data bases – web-based references for tsunami and submarine landslide research around Europe

EU project ASTARTE aims at developing a higher level of tsunami hazard assessment in the North East Atlantic, Mediterranean and Connected seas (NEAM) region by a combination of field work, experimental work, numerical modeling and technical development. The project is a cooperative work of 26 institutes from 16 countries and links together the description of past tsunamigenic events, the identification and characterization of tsunami sources, the calculation of the impact of such events, and the development of adequate resilience and risks mitigation strategies (www.astarte.eu). Within ASTARTE two web-based data bases on Paleotsunami and Mass Transport Deposits in the NEAM areas were created with the purpose to be the future information repositories for tsunami research in Europe.The aim is to integrate every existing official scientific reports and peer reviewed papers on these topics and update on new entries every 6-12 months, hosting information and detailed data, that are crucial e.g for tsunami modeling. A relational database managed by ArcGIS for Desktop 10.x software has been implemented. One of the final goals of the project is the public sharing of the archived datasets through a web-based map service that will allow visualizing, querying, analyzing, and interpreting all datasets. The interactive map service will be hosted by ArcGIS Online and will deploy the cloud capabilities of the portal. Any interested users will be able to access the online GIS resources through any Internet browser or specific apps that run on desktop machines, smartphones, or tablets and will be able to use the analytical tools, key tasks, and workflows of the service.We will present the data bases structure and topics as well as their ArcGIS Online version. The research leading to these results has received funding from the European Union’s Seventh Framework Programme (FP7/2007-2013) under grant agreement n 603839 (Project ASTARTE - Assessment, Strategy and Risk Reduction for Tsunamis in Europe).PublishedWien, Austria5T. Modelli di pericolosità sismica e da maremot

Detection of recurrent rearrangement breakpoints from copy number data

<p>Abstract</p> <p>Background</p> <p>Copy number variants (CNVs), including deletions, amplifications, and other rearrangements, are common in human and cancer genomes. Copy number data from array comparative genome hybridization (aCGH) and next-generation DNA sequencing is widely used to measure copy number variants. Comparison of copy number data from multiple individuals reveals recurrent variants. Typically, the interior of a recurrent CNV is examined for genes or other loci associated with a phenotype. However, in some cases, such as gene truncations and fusion genes, the target of variant lies at the boundary of the variant.</p> <p>Results</p> <p>We introduce Neighborhood Breakpoint Conservation (NBC), an algorithm for identifying rearrangement breakpoints that are highly conserved at the same locus in multiple individuals. NBC detects recurrent breakpoints at varying levels of resolution, including breakpoints whose location is exactly conserved and breakpoints whose location varies within a gene. NBC also identifies pairs of recurrent breakpoints such as those that result from fusion genes. We apply NBC to aCGH data from 36 primary prostate tumors and identify 12 novel rearrangements, one of which is the well-known TMPRSS2-ERG fusion gene. We also apply NBC to 227 glioblastoma tumors and predict 93 novel rearrangements which we further classify as gene truncations, germline structural variants, and fusion genes. A number of these variants involve the protein phosphatase PTPN12 suggesting that deregulation of PTPN12, via a variety of rearrangements, is common in glioblastoma.</p> <p>Conclusions</p> <p>We demonstrate that NBC is useful for detection of recurrent breakpoints resulting from copy number variants or other structural variants, and in particular identifies recurrent breakpoints that result in gene truncations or fusion genes. Software is available at <url>http://http.//cs.brown.edu/people/braphael/software.html</url>.</p

A sequence-based survey of the complex structural organization of tumor genomes

Tumors and cancer cell lines were surveyed with end-sequencing profiling, yielding the largest available collection of sequence-ready tumor genome breakpoints and providing evidence that some rearrangements may be recurrent

Engaging Struggling Adolescent Readers to Improve Reading Skills

This study examined the efficacy of a supplemental, multicomponent adolescent reading intervention for middle school students who scored below proficient on a state literacy assessment. Using a within-school experimental design, the authors randomly assigned 483 students in grades 6–8 to a business-as-usual control condition or to the Strategic Adolescent Reading Intervention (STARI), a supplemental reading program involving instruction to support word-reading skills, fluency, vocabulary, and comprehension, and peer talk to promote reading engagement and comprehension. The authors assessed behavioral engagement by measuring how much of the STARI curricular activities students completed during an academic school year, and collected intervention teachers' ratings of their students' reading engagement. STARI students outperformed control students on measures of word recognition (Cohen's d = 0.20), efficiency of basic reading comprehension (Cohen's d = 0.21), and morphological awareness (Cohen's d = 0.18). Reading engagement in its behavioral form, as measured by students' participation and involvement in the STARI curriculum, mediated the treatment effects on each of these three posttest outcomes. Intervention teachers' ratings of their students' emotional and cognitive engagement explained unique variance on reading posttests. Findings from this study support the hypothesis that (a) behavioral engagement fosters struggling adolescents' reading growth, and (b) teachers' perceptions of their students' emotional and cognitive engagement further contribute to reading competence

The ANTENATAL multicentre study to predict postnatal renal outcome in fetuses with posterior urethral valves: objectives and design

Abstract Background Posterior urethral valves (PUV) account for 17% of paediatric end-stage renal disease. A major issue in the management of PUV is prenatal prediction of postnatal renal function. Fetal ultrasound and fetal urine biochemistry are currently employed for this prediction, but clearly lack precision. We previously developed a fetal urine peptide signature that predicted in utero with high precision postnatal renal function in fetuses with PUV. We describe here the objectives and design of the prospective international multicentre ANTENATAL (multicentre validation of a fetal urine peptidome-based classifier to predict postnatal renal function in posterior urethral valves) study, set up to validate this fetal urine peptide signature. Methods Participants will be PUV pregnancies enrolled from 2017 to 2021 and followed up until 2023 in >30 European centres endorsed and supported by European reference networks for rare urological disorders (ERN eUROGEN) and rare kidney diseases (ERN ERKNet). The endpoint will be renal/patient survival at 2 years postnatally. Assuming α = 0.05, 1–β = 0.8 and a mean prevalence of severe renal outcome in PUV individuals of 0.35, 400 patients need to be enrolled to validate the previously reported sensitivity and specificity of the peptide signature. Results In this largest multicentre study of antenatally detected PUV, we anticipate bringing a novel tool to the clinic. Based on urinary peptides and potentially amended in the future with additional omics traits, this tool will be able to precisely quantify postnatal renal survival in PUV pregnancies. The main limitation of the employed approach is the need for specialized equipment. Conclusions Accurate risk assessment in the prenatal period should strongly improve the management of fetuses with PUV

Altimetry for the future: Building on 25 years of progress

In 2018 we celebrated 25 years of development of radar altimetry, and the progress achieved by this methodology in the fields of global and coastal oceanography, hydrology, geodesy and cryospheric sciences. Many symbolic major events have celebrated these developments, e.g., in Venice, Italy, the 15th (2006) and 20th (2012) years of progress and more recently, in 2018, in Ponta Delgada, Portugal, 25 Years of Progress in Radar Altimetry. On this latter occasion it was decided to collect contributions of scientists, engineers and managers involved in the worldwide altimetry community to depict the state of altimetry and propose recommendations for the altimetry of the future. This paper summarizes contributions and recommendations that were collected and provides guidance for future mission design, research activities, and sustainable operational radar altimetry data exploitation. Recommendations provided are fundamental for optimizing further scientific and operational advances of oceanographic observations by altimetry, including requirements for spatial and temporal resolution of altimetric measurements, their accuracy and continuity. There are also new challenges and new openings mentioned in the paper that are particularly crucial for observations at higher latitudes, for coastal oceanography, for cryospheric studies and for hydrology. The paper starts with a general introduction followed by a section on Earth System Science including Ocean Dynamics, Sea Level, the Coastal Ocean, Hydrology, the Cryosphere and Polar Oceans and the ‘‘Green” Ocean, extending the frontier from biogeochemistry to marine ecology. Applications are described in a subsequent section, which covers Operational Oceanography, Weather, Hurricane Wave and Wind Forecasting, Climate projection. Instruments’ development and satellite missions’ evolutions are described in a fourth section. A fifth section covers the key observations that altimeters provide and their potential complements, from other Earth observation measurements to in situ data. Section 6 identifies the data and methods and provides some accuracy and resolution requirements for the wet tropospheric correction, the orbit and other geodetic requirements, the Mean Sea Surface, Geoid and Mean Dynamic Topography, Calibration and Validation, data accuracy, data access and handling (including the DUACS system). Section 7 brings a transversal view on scales, integration, artificial intelligence, and capacity building (education and training). Section 8 reviews the programmatic issues followed by a conclusion