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Scaling Notebooks as Re-configurable Cloud Workflows

Data Intelligence 2022年第2期4卷 409-425页

作者： Yuandou Wang Spiros Koulouzis riccardo bianchi Na Li Yifang Shi Joris Timmermans W.Daniel Kissling Zhiming Zhao Multiscale Networked Systems Informatics InstituteUniversity of Amsterdam1098XH AmsterdamThe Netherlands Life Watch ERIC Virtual Lab&InnovationCenter(VLIC)Science Park 9041098XH AmsterdamThe Netherlands Institute for Biodiversity and Ecosystem Dynamics(IBED) 1098xH AmsterdamThe Netherlands

Literate computing environments,such as the Jupyter(i.e.,Jupyter Notebooks,JupyterLab,and JupyterHub),have been widely used in scientific studies;they allow users to interactively develop scientific code,test algorithms,and describe the scientific narratives of the experiments in an integrated document.To scale up scientific analyses,many implemented Jupyter environment architectures encapsulate the whole Jupyter notebooks as reproducible units and autoscale them on dedicated remote infrastructures(e.g.,highperformance computing and cloud computing environments).The existing solutions are stl limited in many ways,e.g.,1)the workflow(or pipeline)is implicit in a notebook,and some steps can be generically used by different code and executed in parallel,but because of the tight cell structure,all steps in the Jupyter notebook have to be executed sequentially and lack of the flexibility of reusing the core code fragments,and 2)there are performance bottlenecks that need to improve the parallelism and scalability when handling extensive input data and complex computation.In this work,we focus on how to manage the workflow in a notebook seamlessly.We 1)encapsulate the reusable cells as RESTful services and containerize them as portal components,2)provide a composition tool for describing workflow logic of those reusable components,and 3)automate the execution on remote cloud infrastructure.Empirically,we validate the solution's usability via a use case from the Ecology and Earth Science domain,illustrating the processing of massive Light Detection and Ranging(LiDAR)data.The demonstration and analysis show that our method is feasible,but that it needs further improvement,especially on integrating distributed workflow scheduling,automatic deployment,and execution to develop as a mature approach.

关键词： Scientific experiments Jupyter Notebooks Workflow management Ecosystem structure data products Cloud Scalability

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Selective internal radiation therapy segmentectomy:A new minimally invasive curative option for primary liver malignancies?

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World Journal of Gastroenterology 2024年第18期30卷 2379-2386页

作者： riccardo Inchingolo Francesco Cortese Antonio Rosario Pisani Fabrizio Acquafredda Roberto Calbi riccardo Memeo Fotis Anagnostopoulos Stavros Spiliopoulos Unit of Interventional Radiology “F.Miulli”Regional General HospitalBari 70021Italy Interdisciplinary Department of Medicine Section of Nuclear MedicineUniversity of Bari“Aldo Moro”Bari 70121Italy Department of Radiology General Regional Hospital“F.Miulli”Acquaviva delle Fonti 70021Italy Unit of Hepato-Pancreatic-Biliary Surgery “F.Miulli”Regional General HospitalBari 70021Italy The Second Radiology Department National and Kapodistrian University of AthensChaidari Athens 12461Greece

Transarterial radioembolization or selective internal radiation therapy(SIRT)has emerged as a minimally invasive approach for the treatment of tumors.This percutaneous technique involves the local,intra-arterial delivery of radioactive microspheres directly into the tumor.Historically employed as a palliative measure for liver malignancies,SIRT has gained traction over the past decade as a potential curative option,mirroring the increasing role of radiation segmentectomy.The latest update of the BCLC hepatocellular carcinoma guidelines recognizes SIRT as an effective treatment modality comparable to other local ablative methods,particularly well-suited for patients where surgical resection or ablation is not feasible.Radiation segmentectomy is a more selective approach,aiming to deliver high-dose radiation to one to three specific hepatic segments,while minimizing damage to surrounding healthy tissue.Future research efforts in radiation segmentectomy should prioritize optimizing radiation dosimetry and refining the technique for super-selective administration of radiospheres within the designated hepatic segments.

关键词： Transarterial radioembolization Selective internal radiation therapy Radiation segmentectomy Hepatocellular carcinoma Primary liver malignancies Personalised dosimetry

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A Methodology for Vulnerability Assessment of Cultural Heritage in Extreme Climate Changes

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International Journal of Disaster Risk Science 2024年第3期15卷 404-420页

作者： riccardo Cacciotti Alessandro Sardella Milo? Drdácky Alessandra Bonazza Institute of Theoretical and Applied Mechanics Czech Academy of Sciences Institute of Atmospheric Sciences and Climate National Research Council of Italy Department of Environmental and Prevention Sciences University of Ferrara Istituto Superiore per la Protezione e la Ricerca Ambientale

Vulnerability evaluation plays a key role in risk assessment and reduction and is essential for defining strategies for climate change adaptation and mitigation. In dealing with the safeguarding of cultural heritage at risk, we are still far from adopting and applying an agreed methodology for vulnerability assessment. With the aim to support practitioners, heritage managers,and policy and decision makers to undertake actions that address the protection of cultural heritage at risk, the methodology set up in the framework of the Interreg Central Europe STRENCH is illustrated and discussed here. Based on three major requirements(susceptibility, exposure, and resilience) and a continuous consultation with local stakeholders, the proposed methodology is applicable for evaluating the vulnerability of built heritage and cultural landscape exposed to hydrometeorological hazards, such as heavy rains, floods, and droughts. The results obtained through its validation on 15 case studies from seven Central European regions are shown to underline the strengths and limitations of the methodological approach.Iterative consultation with local stakeholders was fundamental for the definition of the criteria/subcriteria and related values for the assessment of the requirements. Application to further sites in other contexts would surely contribute to strengthening the reliability of the methodological approach.

关键词： Built and natural heritage Exposure Heritage vulnerability Resilience Risk management Susceptibility

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Deer antler stem cell niche: An interesting perspective

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World Journal of Stem Cells 2024年第5期16卷 479-485页

作者： Claudia Cavallini Elena Olivi riccardo Tassinari Chiara Zannini Gregorio Ragazzini Martina Marcuzzi Valentina Taglioli Carlo Ventura National Laboratory of Molecular Biology and Stem Cell Engineering National Institute of Biostructures and Biosystems-Eldor LabBologna 40128Italy Eldor Lab Bologna 40128Italy Department of Medical and Surgical Sciences(DIMEC) University of BolognaBologna 40138Italy

In recent years,there has been considerable exploration into methods aimed at enhancing the regenerative capacity of transplanted and/or tissue-resident cells.Biomaterials,in particular,have garnered significant interest for their potential to serve as natural scaffolds for cells.In this editorial,we provide commentary on the study by Wang et al,in a recently published issue of World J Stem Cells,which investigates the use of a decellularized xenogeneic extracellular matrix(ECM)derived from antler stem cells for repairing osteochondral defects in rat knee joints.Our focus lies specifically on the crucial role of biological scaffolds as a strategy for augmenting stem cell potential and regenerative capabilities,thanks to the establishment of a favorable microenvironment(niche).Stem cell differen-tiation heavily depends on exposure to intrinsic properties of the ECM,including its chemical and protein composition,as well as the mechanical forces it can generate.Collectively,these physicochemical cues contribute to a bio-instructive signaling environment that offers tissue-specific guidance for achieving effective repair and regeneration.The interest in mechanobiology,often conceptualized as a form of“structural memory”,is steadily gaining more validation and momen-tum,especially in light of findings such as these.

关键词： Extracellular matrix Antler stem cells Stem cell niche Regenerative medicine Decellularized scaffolds Cell memory

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Transurethral prostate surgery in prostate cancer patients: A population-based comparative analysis of complication and mortality rates

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Asian Journal of Urology 2024年第1期11卷 48-54页

作者： Michele Marchioni Giulia Primiceri Alessandro Veccia Marta Di Nicola Umberto Carbonara Fabio Crocerossa Ugo Falagario Ambra Rizzoli riccardo Autorino Luigi Schips Laboratory of Biostatistics Department of MedicalOral and Biotechnological Sciences“G.d'Annunzio”University of ChietiChietiItaly Urology Unit Department of MedicalOral and Biotechnological Sciences“G.d'Annunzio”University of ChietiChietiItaly Division of Urology VCU HealthRichmondVAUSA

Objective:Prostate cancer(PCa)patients might experience lower urinary tract symptoms as those diagnosed with benign prostatic hyperplasia(BPH).Some of them might be treated for their lower urinary tract symptoms instead of PCa.We aimed to test the effect of PCa versus BPH on surgical outcomes after transurethral prostate surgery,namely complication and mortality rates.Methods:Within the American College of Surgeons National Surgical Quality Improvement Program database(2011-2016),we identified patients who underwent transurethral resection of the prostate,photoselective vaporization,or laser enucleation.Patients were stratified according to postoperative diagnosis(PCa vs.BPH).Univariable and multivariable logistic regression models evaluated the predictors of perioperative morbidity and mortality.A formal test of interaction between diagnosis and surgical technique used was performed.Results:Overall,34542 patients were included.Of all,2008(5.8%)had a diagnosis of PCa.The multivariable logistic regression model failed to show statistically significant higher rates of postoperative complications in PCa patients(odds ratio:0.9,95%confidence interval:0.7-1.1;p=0.252).Moreover,similar rates of perioperative mortality(p=0.255),major acute cardiovascular events(p=0.581),transfusions(p=0.933),and length of stay of more than or equal to 30 days(p=0.174)were found.Additionally,all tests failed to show an interaction between post-operative diagnosis and surgical technique used.Conclusion:Patients diagnosed with PCa do not experience higher perioperative morbidity or mortality after transurethral prostate surgery when compared to their BPH counterparts.Moreover,the diagnosis seems to not influence surgical technique outcomes.

关键词： Prostatecancer Transurethral surgery of the prostate Prostate surgery Population-based analysis Benign prostatic hyperplasia Lasersurgery

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Modeling of recrystallization behaviour of AA6XXX aluminum alloy profile during extrusion process

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Transactions of Nonferrous Metals Society of China 2024年

作者： Marco Negozio Antonio Segatori riccardo Pelaccia Barbara Reggiani Sara Di Donato Lorenzo Donati DIN Department of Industrial Engineering – University of Bologna University of Parma-Department of Engineering and Architecture Parco Area delle Scienze Hydro Innovation and Technology InterMech-MO.RE – University of Modena and Reggio Emilia DISMI Department of Sciences and Methods for Engineering University of Modena and Reggio Emilia

An innovative approach was introduced for the development of a AA6063 recrystallization model. This method incorporated a regression-based technique for the determination of material constants and introduced novel equations for assessing the grain size evolution. Calibration and validation of this methodology involved a combination of experimentally acquired microstructural data from the extrusion of three different AA6063 profiles and results from the simulation using the Qform Extrusion UK finite element code. The outcomes proved the agreement between experimental findings and numerical prediction of the microstructural evolution. The trend of the grain size variation based on different process parameters has been accurately simulated， both after dynamic and static recrystallization， with an error rate of less than 25% in almost the whole sampling computations.

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Absolute Wall Thickness Measurement of Conducting Plates Using Pulsed Eddy Currents

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Journal of Electromagnetic Analysis and Applications 2024年第3期16卷 25-41页

作者： Victor-O. de Haan riccardo Scottini BonPhysics Research and Investigations BV Puttershoek Netherlands

The method using pulsed eddy currents to determine the thickness of a conduction plate is extended to enable the simultaneous measurement of the plate thickness and material properties. For optimal performance, a probe must be designed depending on the thickness range that should be accessible. The need for a calibration of the material properties of a conducting plate to enable the measurement of its thickness has been removed. All that is needed is a probe with known dimensions and suitable hardware to create a current pulse and measure a transient magnetic induction.

关键词： Pulsed Eddy Currents Wall Thickness Absolute and Relative Measurements

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Laser-optimized Pt-Y alloy nanoparticles embedded in Pt-Y oxide matrix for high stability and ORR electrocatalytic activity

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Journal of Energy Chemistry 2024年第5期92卷 508-520页

作者： riccardo Brandiele Andrea Guadagnini Mattia Parnigotto Federico Pini Vito Coviello Denis Badocco Paolo Pastore Gian Andrea Rizzi Andrea Vittadini Daniel Forrer Vincenzo Amendola Christian Durante Department of Chemical Sciences University of PaduaVia Marzolo 135131 PadovaItaly Istituto di Chimica della Materia Condensata e di Tecnologie per l’Energia ICMATE-CNR via Marzolo 1 I-35131 PadovaItaly

The development of active yet stable catalysts for oxygen reduction reaction(ORR)is still a major issue for the extensive permeation of fuel cells into everyday technology.While nanostructured Pt catalysts are to date the best available systems in terms of activity,the same is not true for stability,particularly under operating conditions.In this work,Pt_(Х)Y alloy nanoparticles are proposed as active and durable electrocatalysts for ORR.Pt_(Х)Y nanoalloys are synthesized and further optimized by laser ablation in liquid followed by laser fragmentation in liquid.The novel integrated laser-assisted methodology succeeded in producing Pt_(Х)Y nanoparticles with the ideal size(1000 A g^(-1).At the same time,the nanoalloys are embedded in a fine Pt oxide matrix,which allows a greater stability of the catalyst than the commercial Pt reference,as directly verified on a gas diffusion electrode.

关键词： Electrocatalysis GDE ORR Pt_(2)Y Pt_(3)Y LAL LFL Oxide support Pto Nanoalloys

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Single-emitter super-resolved imaging of radiative decay rate enhancement in dielectric gap nanoantennas

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Light(Science & Applications) 2024年第1期13卷 47-54页

作者： R.Margoth Córdova-Castro Bart van Dam Alberto Lauri Stefan A.Maier riccardo Sapienza Yannick De Wilde Ignacio Izeddin Valentina Krachmalnicoff Institut Langevin ESPCI ParisPSL UniversityCNRSParisFrance The Blackett Laboratory Department of PhysicsImperial College LondonLondonUK School of Physics and Astronomy Monash UniversityClaytonVictoriaAustralia Chair in Hybrid Nanosystems Ludwig-Maximilians Universität MünchenMuenchenGermany Department of Physics University of OttawaOttawaONCanada

High refractive index dielectric nanoantennas strongly modify the decay rate via the Purcell effect through the design of radiative channels.Due to their dielectric nature,the field is mainly confined inside the nanostructure and in the gap,which is hard to probe with scanning probe techniques.Here we use single-molecule fluorescence lifetime imaging microscopy(smFLIM)to map the decay rate enhancement in dielectric GaP nanoantenna dimers with a median localization precision of 14 nm.We measure,in the gap of the nanoantenna,decay rates that are almost 30 times larger than on a glass substrate.By comparing experimental results with numerical simulations we show that this large enhancement is essentially radiative,contrary to the case of plasmonic nanoantennas,and therefore has great potential for applications such as quantum optics and biosensing.

关键词： dielectric decay radiative

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Homocysteinemia and Depression in Community-Dwelling Older Adults: The Cohort Longitudinal Study “InveCeAb” (Brain Aging in Abbiategrasso)

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Health 2024年第1期16卷 22-36页

作者： Mauro Colombo Annalisa Davin Elena Rolandi Michele Rossi riccardo Ferrari Erica Spina Antonio Guaita Golgi Cenci Foundation Abbiategrasso Italy

Depression is a major health problem, especially for elderly people. According to the “homocysteine hypothesis of depression”, high homocysteine levels may cause depression of mood via cerebrovascular diseases. Whilst biologically plausible, such hypothesis needs yet confirmation. We aimed at: 1) studying the relationships between homocysteinemia (HCY) and depression in a community-dwelling cohort of people aged 70 to 75 years at baseline;2) investigating plasma levels of HCY and 3) comparing these levels between males and females, in the same population. We exploited the data from four waves (2010, 2012, 2014 and 2018) of the longitudinal study “InveCeAb”, with specific regard towards mood assessment, by Geriatric Depression Scale (GDS) scoring, and diagnosis of clinically relevant or subthreshold depression. HCY plasma levels were measured in the waves 2012, 2014 and 2018. Sample attrition was due mainly to death or overall worsening. No statistically significant differences were found in plasma homocysteine levels in each wave, according to depressive symptoms. No correlations were found between plasma HCY levels in each wave with their corresponding GDS scores, even after adjustment for folate and cobalamin blood concentrations. Dichotomized levels of HCY (≤15 vs >15 μM/l) were not associated with dichotomized GDS scores (≤4 vs higher), clinically relevant and subthreshold depression diagnosis and any antidepressive use, in any wave. First (2012) HCY levels increased with participants’ increasing age, cross-sectionally. Listwise HCY concentrations decreased along the 3 waves. HCY levels were always higher in males than in females. Our results may challenge the “homocysteine hypothesis” of depression, whilst supporting the role of high homocysteinemia as a marker of overall bad health.

关键词： Homocysteinemia Depression Aging Cohort

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