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Big Data Analytics for Earth Sciences:the EarthServer approach

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International Journal of Digital Earth 2016年第1期9卷 3-29页

作者： Peter Baumann Paolo Mazzetti Joachim Ungar Roberto Barbera Damiano Barboni Alan Beccati Lorenzo Bigagli Enrico Boldrini Riccardo Bruno Antonio Calanducci Piero Campalani Oliver Clements Alex Dumitrua,Mike Grant Pasquale Herzig George Kakaletris John Laxton Panagiota Koltsida Kinga Lipskoch Alireza Rezaei Mahdiraji Simone Mantovani Vlad Merticariu Antonio Messina Dimitar Misev Stefano Natali Stefano Nativi Jelmer Oosthoek Marco Pappalardo James Passmore Angelo Pio Rossi Francesco Rundo Marcus Sen Vittorio Sorbera Don Sullivan mario torrisi Leonardo Trovato Maria Grazia Veratelli Sebastian Wagner Large-Scale Scientific Information Systems Jacobs UniversityBremenGermany Rasdaman GmbH BremenGermany CNR-IIA National Research Council of ItalyInstitute of Atmospheric Pollution ResearchFlorenceItaly EOX IT Services GmbH ViennaAustria Consorzio COMETA CataniaItaly Division of Catania Italian National Institute for Nuclear PhysicsCataniaItaly Department of Physics and Astronomy University of CataniaCataniaItaly MEEO S.r.l. FerraraItaly Plymouth Marine Laboratory PlymouthUK Fraunhofer IGD DarmstadtGermany Athena Research and Innovation Center in Information Communication&Knowledge Technologies AthensGreece British Geological Survey EdinburghUK Software Engineering Italia S.r.l. CataniaItaly British Geological Survey KeyworthUK NASA Ames Research Center Moffett FieldCAUSA

Big Data Analytics is an emerging field since massive storage and computing capabilities have been made available by advanced e-infrastructures.Earth and Environmental sciences are likely to benefit from Big Data Analytics techniques supporting the processing of the large number of Earth Observation datasets currently acquired and generated through observations and simulations.However,Earth Science data and applications present specificities in terms of relevance of the geospatial information,wide heterogeneity of data models and formats,and complexity of processing.Therefore,Big Earth Data Analytics requires specifically tailored techniques and tools.The EarthServer Big Earth Data Analytics engine offers a solution for coverage-type datasets,built around a high performance array database technology,and the adoption and enhancement of standards for service interaction(OGC WCS and WCPS).The EarthServer solution,led by the collection of requirements from scientific communities and international initiatives,provides a holistic approach that ranges from query languages and scalability up to mobile access and visualization.The result is demonstrated and validated through the development of lighthouse applications in the Marine,Geology,Atmospheric,Planetary and Cryospheric science domains.

关键词： big data Big Data Analytics array databases Earth Sciences interoperability standards

Machine learning applications in stroke medicine:advancements,challenges,and future prospectives

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Neural Regeneration Research 2024年第4期19卷 769-773页

作者： mario Daidone Sergio Ferrantelli Antonino Tuttolomondo Internal Medicine and Stroke Care Ward Department of Health PromotionMother and Child CareInternal Medicine and Medical SpecialtiesUniversity of Palermo Molecular and Clinical Medicine PhD Program University of Palermo

Stroke is a leading cause of disability and mortality worldwide,necessitating the development of advanced technologies to improve its diagnosis,treatment,and patient outcomes.In recent years,machine learning techniques have emerged as promising tools in stroke medicine,enabling efficient analysis of large-scale datasets and facilitating personalized and precision medicine approaches.This abstract provides a comprehensive overview of machine learning’s applications,challenges,and future directions in stroke medicine.Recently introduced machine learning algorithms have been extensively employed in all the fields of stroke medicine.Machine learning models have demonstrated remarkable accuracy in imaging analysis,diagnosing stroke subtypes,risk stratifications,guiding medical treatment,and predicting patient prognosis.Despite the tremendous potential of machine learning in stroke medicine,several challenges must be addressed.These include the need for standardized and interoperable data collection,robust model validation and generalization,and the ethical considerations surrounding privacy and bias.In addition,integrating machine learning models into clinical workflows and establishing regulatory frameworks are critical for ensuring their widespread adoption and impact in routine stroke care.Machine learning promises to revolutionize stroke medicine by enabling precise diagnosis,tailored treatment selection,and improved prognostication.Continued research and collaboration among clinicians,researchers,and technologists are essential for overcoming challenges and realizing the full potential of machine learning in stroke care,ultimately leading to enhanced patient outcomes and quality of life.This review aims to summarize all the current implications of machine learning in stroke diagnosis,treatment,and prognostic evaluation.At the same time,another purpose of this paper is to explore all the future perspectives these techniques can provide in combating this disabling disease.

关键词： cerebrovascular disease deep learning machine learning reinforcement learning stroke stroke therapy supervised learning unsupervised learning

Research funding and citations in papers of Nobel Laureates in Physics, Chemistry and Medicine, 2019-2020

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Journal of Data and Information Science 2024年第2期9卷 56-80页

作者： mario Coccia Saeed Roshani CNR-National Research Council of Italy IRCRES-CNRTurin Research Area of the CNRStrada delle Cacce73-10135-TurinItaly Arizona State University School of Complex Adaptive Systems1031 S.Palm WalkTempeAZ 85281-2701USA Allameh Tabataba’i University Department of Technology and Entrepreneurship ManagementDehkadeh-ye-OTehran***Iran

Purpose:The goal of this study is a comparative analysis of the relation between funding(a main driver for scientific research)and citations in papers of Nobel Laureates in physics,chemistry and medicine over 2019-2020 and the same relation in these research fields as a whole.Design/methodology/approach:This study utilizes a power law model to explore the relationship between research funding and citations of related papers.The study here analyzes 3,539 recorded documents by Nobel Laureates in physics,chemistry and medicine and a broader dataset of 183,016 documents related to the fields of physics,medicine,and chemistry recorded in the Web of Science database.Findings:Results reveal that in chemistry and medicine,funded researches published in papers of Nobel Laureates have higher citations than unfunded studies published in articles;vice versa high citations of Nobel Laureates in physics are for unfunded studies published in papers.Instead,when overall data of publications and citations in physics,chemistry and medicine are analyzed,all papers based on funded researches show higher citations than unfunded ones.Originality/value:Results clarify the driving role of research funding for science diffusion that are systematized in general properties:a)articles concerning funded researches receive more citations than(un)funded studies published in papers of physics,chemistry and medicine sciences,generating a high Matthew effect(a higher growth of citations with the increase in the number of papers);b)research funding increases the citations of articles in fields oriented to applied research(e.g.,chemistry and medicine)more than fields oriented towards basic research(e.g.,physics).Practical implications:The results here explain some characteristics of scientific development and diffusion,highlighting the critical role of research funding in fostering citations and the expansion of scientific knowledge.This finding can support decision-making of policymakers and R&D managers to improve the effectiveness in allocating

关键词： Research funding Citations Science diffusion Scientific change Science of Science Power-law distribution Basic research Applied research Matthew effect Nobel Laureates Nobel Prizes

Survival effects of antibiotic exposure during the larval and adult stages in the West Nile virus vector Culex pipiens

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Insect Science 2024年第2期31卷 542-550页

作者： Marta Garrigos mario Garrido Manuel Morales-Yuste JosuéMartinez-de la Puente Jesus Veiga Faculty of Pharmacy Department of ParasitologyUniversity of GranadaGranadaSpain CIBER de Epidemiologia y Salud Publica(CIBERESP) MadridSpain

The ability of mosquitoes to transmit a pathogen is affected,among other factors,by their survival rate,which is partly modulated by their microbiota.Mosquito microbiota is acquired during the larval phase and modified during their development and adult feeding behavior,being highly dependent on environmental factors.Pharmaceutical residues including antibiotics are widespread pollutants potentially being present in mosquito breeding waters likely affecting their microbiota.Here,we used Culex pipiens mosquitoes to assess the impact of antibiotic exposure during the larval and adult stages on the survival rate of adult mosquitoes.Wild-collected larvae were randomly assigned to two treatments:larvae maintained in water supplemented with antibiotics and control larvae.Emerged adults were subsequently assigned to each of two treatments,fed with sugar solution with antibiotics and fed only with sugar solution(controls).Larval exposure to antibiotics significantly increased the survival rate of adult females that received a control diet.In addition,the effect of adult exposure to antibiotics on the survival rate of both male and female mosquitoes depended on the number of days that larvae fed ad libitum in the laboratory before emergence.In particular,shorter larval ad libitum feeding periods reduced the survival rate of antibiotic-treated adult mosquitoes compared with those that emerged after a longer larval feeding period.These differences were not found in control adult mosquitoes.Our results extend the current understanding of the impact of antibiotic exposure of mosquitoes on a key component of vectorial capacity,that is the vector survival rate.

关键词： antibiotics avian malaria microbiota mosquitoes vector competence vector survival

Genomic signatures of selection,local adaptation and production type characterisation of East Adriatic sheep breeds

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Journal of Animal Science and Biotechnology 2024年第2期15卷 546-562页

作者： Boris Lukic Ino Curik Ivana Drzaic Vlatko Galić mario Shihabi LubošVostry Vlatka Cubric-Curik Faculty of Agrobiotechnical Sciences Osijek J.JStrossmayer University of OsijekVladimira Preloga 131000 OsijekCroatia Department of Animal Science Faculty of AgricultureUniversity of ZagrebSvetošimunska Cesta 2510000 ZagrebCroatia Department of Maize Breeding and Genetics Agricultural Institute OsijekJužno predgrađe 1731000 OsijekCroatia Czech University of Life Sciences Prague Kamycka 12916500 PraqueCzech Republic

Background The importance of sheep breeding in the Mediterranean part of the eastern Adriatic has a long tradition since its arrival during the Neolithic migrations.Sheep production system is extensive and generally carried out in traditional systems without intensive systematic breeding programmes for high uniform trait production(carcass,wool and milk yield).Therefore,eight indigenous Croatian sheep breeds from eastern Adriatic treated here as metapopulation(EAS),are generally considered as multipurpose breeds(milk,meat and wool),not specialised for a particular type of production,but known for their robustness and resistance to certain environmental conditions.Our objective was to identify genomic regions and genes that exhibit patterns of positive selection signatures,decipher their biological and productive functionality,and provide a"genomic"characterization of EAS adaptation and determine its production type.Results We identified positive selection signatures in EAS using several methods based on reduced local variation,linkage disequilibrium and site frequency spectrum(eROHi,iHS,nSL and CLR).Our analyses identified numerous genomic regions and genes(e.g.,desmosomal cadherin and desmoglein gene families)associated with environmental adaptation and economically important traits.Most candidate genes were related to meat/production and health/immune response traits,while some of the candidate genes discovered were important for domestication and evolutionary processes(e.g.,HOXa gene family and FSIP2).These results were also confirmed by GO and QTL enrichment analysis.Conclusions Our results contribute to a better understanding of the unique adaptive genetic architecture of EAS and define its productive type,ultimately providing a new opportunity for future breeding programmes.At the same time,the numerous genes identified will improve our understanding of ruminant(sheep)robustness and resistance in the harsh and specific Mediterranean environment.

关键词： Composite-likelihood ratio East Adriatic sheep Extreme ROH islands Genomic selection signatures Integrated haplotype score Number of segregating sites by length

Multi‑omics integration identifies regulatory factors underlying bovine subclinical mastitis

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Journal of Animal Science and Biotechnology 2024年第3期15卷 987-1007页

作者： Mengqi Wang Naisu Yang mario Laterriere David Gagne Faith Omonijo Eveline M.Ibeagha‑Awemu Agriculture and Agri‑Food Canada Sherbrooke Research and Development CentreSherbrookeQCCanada Department of Animal Science Universite LavalQuebec CityQCCanada Quebec Research and Development Centre Agriculture and Agri-Food CanadaQuebec CityQCCanada

Background Mastitis caused by multiple factors remains one of the most common and costly disease of the dairy industry.Multi-omics approaches enable the comprehensive investigation of the complex interactions between mul-tiple layers of information to provide a more holistic view of disease pathogenesis.Therefore,this study investigated the genomic and epigenomic signatures and the possible regulatory mechanisms underlying subclinical mastitis by integrating RNA sequencing data(mRNA and lncRNA),small RNA sequencing data(miRNA)and DNA methylation sequencing data of milk somatic cells from 10 healthy cows and 20 cows with naturally occurring subclinical mastitis caused by Staphylococcus aureus or Staphylococcus chromogenes.Results Functional investigation of the data sets through gene set analysis uncovered 3458 biological process GO terms and 170 KEGG pathways with altered activities during subclinical mastitis,provided further insights into subclin-ical mastitis and revealed the involvement of multi-omics signatures in the altered immune responses and impaired mammary gland productivity during subclinical mastitis.The abundant genomic and epigenomic signatures with sig-nificant alterations related to subclinical mastitis were observed,including 30,846,2552,1276 and 57 differential methylation haplotype blocks(dMHBs),differentially expressed genes(DEGs),lncRNAs(DELs)and miRNAs(DEMs),respectively.Next,5 factors presenting the principal variation of differential multi-omics signatures were identified.The important roles of Factor 1(DEG,DEM and DEL)and Factor 2(dMHB and DEM),in the regulation of immune defense and impaired mammary gland functions during subclinical mastitis were revealed.Each of the omics within Factors 1 and 2 explained about 20%of the source of variation in subclinical mastitis.Also,networks of impor-tant functional gene sets with the involvement of multi-omics signatures were demonstrated,which contributed to a comprehensive view of the possible regulatory mechanisms underlying subclinical mastiti

关键词： Candidate discriminant multi-omics signature Gene Long non-coding RNA Methylation haplotype block MicroRNA Multi-omics integration Natural killer cell mediated cytotoxicity pathway Staphylococcus aureus infection pathway

Stem cell technology for antitumor drug loading and delivery in oncology

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Oncology Research 2024年第3期32卷 433-437页

作者： FRANCESCO PETRELLA ENRICO mario CASSINA LIDIA LIBRETTI EMANUELE PIRONDINI FEDERICO RAVEGLIA ANTONIO TUORO Department of Thoracic Surgery Fondazione IRCCSS an Gerardo dei TintoriMonza20900Italy

The main aim of antineoplastic treatment is to maximize patient benefit by augmenting the drug accumulation within affected organs and tissues,thus incrementing drug effects and,at the same time,reducing the damage of non-involved tissues to cytotoxic agents.Mesenchymal stromal cells(MSC)represent a group of undifferentiated multipotent cells presenting wide self-renewal features and the capacity to differentiate into an assortment of mesenchymal family cells.During the last year,they have been proposed as natural carriers for the selective release of antitumor drugs to malignant cll,s thus optimizing cytotoxic action on cancer cll,while significantly reducing adverse side efect on healthy cells.MSC chemotherapeutic drug loading and delivery is an encouraging new area of cell therapy for several tumors,especially for those with unsatisfactory prognosis and limited treatment options available.Although some experim ental models have been sucesfuly developed,phase I dinical studies are needed to confirm this potential application of cell therapy,in particular in the case of primary and secondary lung cancers.

关键词： Mesenchymal stromal cell Drug loading Drug delivery Mesothelioma Melanoma Glioblastoma Pancreatic ductal adenocarcinoma Multiple myeloma

MIS 5e sea surface temperature estimation;a multi-proxy approach using a marine macrofossil assemblage(Mar Piccolo,Gulf of Taranto,Southern Italy)

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Journal of Palaeogeography 2024年第2期13卷 327-350页

作者： Pierluigi Santagati Edoardo Perri Maria Pia Bernasconi mario Borrelli Salvatore Guerrieri Salvatore Critelli Dipartimento di Biologia Ecologia e Scienze della TerraUniversita della Calabriavia Pietro Bucci87036 Arcavacata di RendeCosenzaItaly Dipartimento di Ingegneria Ambientale Universita della Calabriavia Pietro Bucci87036 Arcavacata di RendeCosenzaItaly

It is reported a multi-proxy palaeoclimatic study conducted on a MIS 5e calcarenite from the Mar Piccolo Basin(MP),Gulf of Taranto(GT)(Central Mediterranean).The calcarenite returned a rich malacofauna consisting of 120 extant species,including four of the tropical Senegalese Fauna,today absent in the Mediterranean.The biogeographic-climatic affinity of the assemblage shows,compared to today,a double percentage of warm affinity species,while the cold affinity species are nearly equally represented,indicating a warmer but not strictly tropical SST.This is confirmed by the most recurring preferred SST ranges of the assemblage,indicating an average of 20℃.The skeletal compositions of five well-preserved molluscan and coral specimens were analyzed for trace elements and stable isotopes for further mean SST estimations.From the comparison of the results of several equations available in literature,it appears that only some SST estimations are realistic,converging into similar values of,on average,20.8±0.9℃.Considering all the used proxies,the MIS 5e SST difference compared to today falls in the range 1.2—2.0℃for the GT(being a more reasonable scenario)and 2.0—2.8℃for the MP.This is not a firmly tropical-like SST setting as suggested by the sole Senegalese fauna,indicating at least 2.7℃—3.5℃more than today’s GT and MP,respectively.The approximations and assumptions made for obtaining SST values with any single proxy indicate the need of a multi-proxy approach to define the best SST estimation.

关键词： MiS 5e Sea surface temperature Palaeoclimate proxy Fossil fauna Gulf of Taranto

Patients’dissatisfaction with multifocal intraocular lenses managed by exchange with other multifocal lenses of diferent optical profles

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Eye and Vision 2024年第1期10卷 31-40页

作者： Olena Al‑Shymali Colm McAlinden Jorge L.Alio del Barrio mario Canto‑Cerdan Jorge L.Alio Research&Development Department VISSUM Innovation and Department of Cornea Cataract and Refractive SurgeryVISSUM CorporationAlicanteSpain Department of Ophthalmology Singleton HospitalSwansea Bay University Health BoardSwanseaUK Division of Ophthalmology School of MedicineVISSUM AlicanteUniversidad Miguel HernándezCalle Cabañal 103016 AlicanteSpain Cornea Cataract and Refractive Surgery DepartmentVISSUM CorporationAlicanteSpain

Background:The aim of the study was to evaluate the outcomes of dissatisfed patients reporting poor visual quality following implantation of multifocal intraocular lenses(MF-IOLs),managed by IOL exchange with another multifocal optical profle.Methods:This is a retrospective series of cases.MF-IOL exchange was done in 15 dissatisfed patients(30 eyes)with the perception of poor visual quality for far distance afected by neuroadaptation failure.Patients underwent a bilateral exchange of a MF-IOL with another MF-IOL of a diferent optical profle.Visual outcomes and complications were analyzed.Questionnaires including Quality of Vision(QoV),Visual Function Index-14(VF-14)and its Rasch-revised version(VF-8R)and a satisfaction questionnaire were also used for outcome evaluation.Results:The mean elapsed time from implantation to explantation-reimplantation was 11.8 months.The QoV scores improved signifcantly across all the three subscales.Visual function improved with a change in VF-14 score from 60.41±24.81 to 90.16±10.91(P<0.001).The VF-8R score improved as well.The uncorrected distance visual acuity improved from 0.24 to 0.12 logMAR after exchange(P<0.001)and corrected distance visual acuity improved from 0.15 to 0.04 logMAR(P<0.001).Safety and efcacy indexes reached 1.46 and 1.16,respectively.Concerning patients’satisfaction following MF-IOL exchange,80%of the patients reported they would have the MF-IOL reimplantation procedure again.Conclusions:Patient dissatisfaction with neuroadaptation failure following MF-IOL implantation can be managed in 80%of our cases by MF-IOL exchange with a diferent MF-IOL optical profle.

关键词： Multifocal intraocular lenses IOL exchange Visual acuity Neuroadaptation failure