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Data Analysis of Multiplex sequencing at sOLiD Platform:A Probabilistic Approach to Characterization and Reliability Increase

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American Journal of Molecular Biology 2018年第1期8卷 26-38页

作者： Fábio Manoel franca Lobato carlos Diego Damasceno Daniela soares Leite Andrea Kelly Ribeiro-dos-santos sylvain Darnet carlos renato francês Nandamudi Lankalapalli Vijaykumar Adamo Lima de santana Engineering and Geoscience Institute Federal University of Western Pará (UFOPa) Santarém Brazil Technological Institute Federal University of Pará (UFPa) Belém Brazil Institute of Mathematical and Computer sciences University of Sao Paulo (USP) Sao Carlos Brazil Department of Morphology and Physiological sciences State University of Pará Marabá Brazil Biological science Institute Federal University of Pará (UFPa) Belém Brazil Laboratory of Computing and Applied Mathematics National Institute for Space Research (INPE) Sao José Dos Campos Brazil

New sequencing technologies such as Illumina/solexa, sOLiD/ABI, and 454/Roche, revolutionized the biological researches. In this context, the sOLiD platform has a particular sequencing type, known as multiplex run, which enables the sequencing of several samples in a single run. It implies in cost reduction and simplifies the analysis of related samples. Meanwhile, this sequencing type requires an additional filtering step to ensure the reliability of the results. Thus, we propose in this paper a probabilistic model which considers the intrinsic characteristics of each sequencing to characterize multiplex runs and filter low-quality data, increasing the data analysis reliability of multiplex sequencing performed on sOLiD. The results show that the proposed model proves to be satisfactory due to: 1) identification of faults in the sequencing process;2) adaptation and development of new protocols for sample preparation;3) the assignment of a degree of confidence to the data generated;and 4) guiding a filtering process, without discarding useful sequences in an arbitrary manner.

关键词： Probabilistic Modeling Health Informatics sOLiD Barcoding system statistical Analysis Multiplex sequencing

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Avian responses to an extreme weather event:The case of the‘Filomena’snowstorm in Madrid(central spain)

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Avian Research 2024年第2期15卷 180-186页

作者： carlos Lazaro carlos sanchez-García Fabian Casas E.Jorge Tizado Department of Research Fundacion Artemisan13001 Ciudad RealSpain Department of Zoology Faculty of SciencesUniversity of GranadaGranadaSpain Department of Biodiversity and Environmental Management Universidad de Leon24401 PonferradaSpain

Cold spells and severe weather may have detrimental effects in wild birds,but owing to the stochastic nature of these events,it is not always possible to measure their *** January 2021,a strong snowstorm known as‘Filomena’affected spain,mainly the region of Madrid(Central spain),which was fully covered with snow and suffered freezing temperatures for a *** bird surveys conducted in the winter-spring of 2020 and 2021(before and after Filomena)at same locations,we addressed the possible impact of the cold spell in three widespread gamebirds:Wood Pigeon(Columba palumbus),Eurasian Magpie(Pica pica)and Red-legged Partridge(Alectoris rufa).No significant abundance differences were found between years for none of the species and hunting pressure was only significantly reduced for Partridges,hence this species may have been negatively affected by *** suggest that in response to Filomena,Pigeons conducted partial migration in search of better conditions,while Magpies aggregated in certain areas of Madrid and Partridges endured the harsh conditions within their home *** results highlight the importance to alleviate negative impacts of extreme weather events in wild birds through management actions,especially for sedentary species.

关键词： Alectoris rufa Climate change Cold spell Columba palumbus Migration Pica pica Winter

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Assessing the energy saving potential of using adaptive setpoint temperatures:The case study of a regional adaptive comfort model for Brazil in both the present and the future

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Building simulation 2024年第3期17卷 459-482页

作者： Daniel sánchez-García David Bienvenido-Huertas carlos Rubio-Bellido Ricardo Forgiarini Rupp Department of Electrical Engineering University Carlos III of MadridMadridSpain Department of Building simulation ZEROCEM SLSevilleSpain Department of Building Constructions University of GranadaGranadaSpain Department of Building Constructions II University of SevilleSevilleSpain section of Design for sustainability Department of Civil and Mechanical EngineeringTechnical University of DenmarkKgs.LyngbyDenmark

It has been found in recent years that using setpoint temperatures based on adaptive thermal comfort models is a successful method of energy *** studies using adaptive setpoint temperatures incorporate international models from AsHRAE standard 55 and *** study,however,has instead considered a regional Brazilian adaptive comfort *** study investigates the energy demand arising from the use of a local Brazilian comfort model in order to assess the energy implications from the use of the worldwide AsHRAE standard 55 adaptive model and various fixed setpoint *** of Brazil’s climate zones,full air-conditioning,mixed-mode building operating modes,present-day climate change scenarios,and future scenarios—specifically Representative Concentration Pathways(RCP)2.6,4.5,and 8.5 for the years 2050 and 2100—have all been taken into account in building energy *** use of adaptive setpoint temperatures based on the Brazilian local model considering mixed-mode has been found to significantly reduce energy consumption when compared to static setpoint temperatures(average energy-saving values ranging from 52%to 58%)and the AsHRAE 55 adaptive model(average values ranging from 15%to 21%).Considering climate change and the mixed-mode Brazilian model,the overall energy demand for the three groups of climatic zones(annual average outdoor temperatures≤21℃,>21 and≤25℃and>25℃)ranged between 2%decrease and 5%increase,4%and 27%increase,and 13%and 45%increase,*** is concluded as a consequence that setting setpoint temperatures based on the Brazilian local adaptive comfort model is a very efficient energy-saving method.

关键词： adaptive thermal comfort building energy simulation energy efficiency climate change adaptive setpoint temperatures local comfort mode

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Elevation transition of aquatic insects closely matches a thermal feature in the Yungas of Northwestern Argentina

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Journal of Mountain science 2024年第2期21卷 433-448页

作者： Alexandra BUITRAGO-GUACANAME carlos MOLINERI Andrés LIRA-NORIEGA Daniel Andrés DOs sANTOs Neotropical Biodiversity Institute(CONICET-UNT) UNT-DomesHorco Molle S/N4107 TucumánArgentina CONACYT Research Fellow Network of Advanced Molecular StudiesInstitute of Ecology A.COld Road to Coatepec 351El HayaCP 91073XalapaVeracruzMexico Biostatistics Chair Faculty of Natural Sciences and IMLNational University of TucumánSan Miguel de TucumánMiguel Lillo 2054000 TucumánArgentina

Temperature is a key factor that shapes the distribution of *** knowledge about how species respond to temperature is relevant to devise strategies for addressing the impacts of climate *** insects are particularly vulnerable to climate change,yet there is still much to learn about their ecology and *** the Yungas ecoregion of Northwestern Argentina,cold-and warm-adapted species of the orders Ephemeroptera,Plecoptera,and Trichoptera(EPT)are segregated by *** modeled the ecological niche of south American EPT species in this region using available data and projected their potential distribution in geographic *** were grouped based on their ecogeographic similarity,and we analyzed their replacement pattern along elevation gradients,focusing on the ecotone where opposing thermal preferences *** this interface,we identified critical points where the combined incidence of cold and warm assemblages maximizes,indicating a significant transition *** found that the Montane Cloud Forest holds the interface,with a particularly greater suitability at its lower *** main axis of the interface runs in a N-s direction and falls between 14°C-16°C mean annual *** probability of a particular location within a basin being classified as part of the interface increases as Kira’s warmth index approaches a score around *** the interface is critical for defining the thermal limits of species distribution and designing biomonitoring *** in the location of thermal constants related to mountainous ecotones may cause vertical displacement of aquatic insects and vegetation *** have recognized significant temperature thresholds that serve as indicators of suitability for the *** global warming is anticipated to shift these indicators,we suggest using them to monitor the imprints of climate change on mountain ecosystems.

关键词： Austral Yungas Ecological Niche Model Ephemeroptera Kira’s warmth index Plecoptera Trichoptera

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Acoustic micro‐beam vortex generator for flow actuation inside droplets

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Droplet 2024年第1期3卷 125-135页

作者： Diego sánchez‐saldaña Maria Fernandino carlos A.Dorao Department of Energy and Process Engineering Norwegian University of Science and TechnologyTrondheimNorway

Controlling acoustic streaming inside a droplet has excellent potential for enabling fluid and particle operations such as mixing,separation,and aggregation in various *** concepts for generating surface acoustic waves are based on the placement of an interdigitated transducer at the side of a droplet,thus externally acting on the *** this case,the flow structure inside the droplet is controlled by the relatively large scale of the interdigitated transducer compared to the droplet,thus limiting the local control of the *** possibility to overcome this drawback is to reduce the size of the actuator such that a highly focused ultrasound transducer can induce localized acoustic streaming in ***,we introduce a micro‐spiral interdigitated transducer smaller than a droplet size that can generate micro‐size vortices inside the *** step enables a new way of controlling the flow inside the droplet,facilitating mixing,separation,aggregation,and patterning of *** study the characteristics of the acoustic streaming and the potential application of the flow for the separation and patterning of *** simplicity of the concept provides in‐droplet particle manipulation toolsets for many applications such as biosensing,microbiology,and point‐of‐care devices.

关键词： flow separation aggregation

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Rotating effects on the photoionization cross-section of a 2D quantum ring

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Communications in Theoretical Physics 2024年第10期76卷 153-159页

作者： carlos Magno O Pereira Frankbelson dos s Azevedo Luís Fernando C Pereira Edilberto O silva Departamento de Física Universidade Federal do Maranh?o

In this article, we investigate the nonrelativistic quantum motion of a charged particle within a rotating frame, taking into account the Aharonov–Bohm(AB) effect and a uniform magnetic field. Our analysis entails the derivation of the equation of motion and the corresponding radial equation to describe the system. solving the resulting radial equation enables us to determine the eigenvalues and eigenfunctions, providing a clear expression for the energy levels. Furthermore,our numerical analysis highlights the substantial influence of rotation on both energy levels and optical properties. specifically, we evaluate the photoionization cross-section with and without the effects of rotation. To elucidate the impact of rotation on the photoionization process of the system, we present graphics that offer an appealing visualization of the intrinsic nature of the physics involved.

关键词： Aharonov-Bohm effect photoionization cross-section quantum ring rotating effect

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Optimal Positioning strategy for Multi-Camera Zooming Drones

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IEEE/CAA Journal of Automatica sinica 2024年第8期11卷 1802-1818页

作者： Manuel Vargas carlos Vivas Teodoro Alamo Department of system Engineering and Automation University of SevilleSeville 41092Spain

In the context of multiple-target tracking and surveillance applications,this paper investigates the challenge of determining the optimal positioning of a single autonomous aerial vehicle or agent equipped with multiple independently-steerable zooming cameras to effectively monitor a set of targets of *** camera is dedicated to tracking a specific target or cluster of *** key innovation of this study,in comparison to existing approaches,lies in incorporating the zooming factor for the onboard cameras into the optimization *** enhancement offers greater flexibility during mission execution by allowing the autonomous agent to adjust the focal lengths of the onboard cameras,in exchange for varying real-world distances to the corresponding targets,thereby providing additional degrees of freedom to the optimization *** proposed optimization framework aims to strike a balance among various factors,including distance to the targets,verticality of viewpoints,and the required focal length for each *** primary focus of this paper is to establish the theoretical groundwork for addressing the non-convex nature of the optimization problem arising from these *** this end,we develop an original convex approximation *** paper also includes simulations of diverse scenarios,featuring varying numbers of onboard tracking cameras and target motion profiles,to validate the effectiveness of the proposed approach.

关键词： Convex optimization projective transformation unmanned aerial vehicle visual object tracking visual surveillance.

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Present and future of new systemic therapies for early and intermediate stages of hepatocellular carcinoma

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World Journal of Gastroenterology 2024年第19期30卷 2512-2522页

作者： Juan Jose Urquijo-Ponce carlos Alventosa-Mateu Mercedes Latorre-sánchez Inmaculada Castelló-Miralles Moisés Diago Hepatology Unit Department of Digestive Diseases Consorcio Hospital General Universitario of ValenciaValencia 46014Spain

Hepatocellular carcinoma(HCC)is a high mortality neoplasm which usually appears on a cirrhotic *** therapeutic arsenal and subsequent prognostic outlook are intrinsically linked to the HCC stage at *** the current deployment of treatments with curative intent(liver resection/local ablation and liver transplantation)in early and intermediate stages,a high rate of HCC recurrence persists,underscoring a pivotal clinical *** systemic therapies(sT),particularly immunotherapy,have demonstrate promising outcomes in terms of increase overall survival,but they are currently bound to the advanced stage of *** review provides a comprehensive analysis of the literature,encompassing studies up to March 10,2024,evaluating the impact of novel sT in the early and intermediate HCC stages,specially focusing on the findings of neoadjuvant and adjuvant regimens,aimed at increasing significantly overall survival and recurrence-free survival after a treatment with curative *** also investigate the potential role of sT in enhancing the downstaging rate for the intermediate-stage HCC initially deemed ineligible for treatment with curative ***,we critically discuss about the current relevance of the results of these studies and the encouraging future implications of sT in the treatment schedules of early and intermediate HCC stages.

关键词： Hepatocellular carcinoma Early stage Intermediate stage Neoadjuvant Adjuvant systemic therapy

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Towards an integrated risk analysis security framework according to a systematic analysis of existing proposals

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Frontiers of Computer science 2024年第3期18卷 199-216页

作者： Antonio sANTOs-OLMO Luis Enrique sÁNCHEZ David G.ROsADO Manuel A.sERRANO carlos BLANCO Haralambos MOURATIDIs Eduardo FERNÁNDEZ-MEDINA GsyA Research Group University of Castilla-La ManchaCiudad Real 13071Spain Institute for Analytics and Data science University of EssexColchester CO43SQUK Alarcos Research Group University of Castilla-La ManchaCiudad Real 13071Spain IsTR Research group Department of Computer Science and ElectronicsUniversity of CantabriaSantander 39005Spain

The information society depends increasingly on risk assessment and management systems as means to adequately protect its key information *** availability of these systems is now vital for the protection and evolution of ***,several factors have led to an increasing need for more accurate risk analysis *** are:the speed at which technologies evolve,their global impact and the growing requirement for companies to *** analysis processes must consequently adapt to these new circumstances and new technological *** objective of this paper is,therefore,to present the results of an exhaustive analysis of the techniques and methods offered by the scientific community with the aim of identifying their main weaknesses and providing a new risk assessment and management *** analysis was carried out using the systematic review protocol and found that these proposals do not fully meet these new *** paper also presents a summary of MARIsMA,the risk analysis and management framework designed by our research *** basis of our framework is the main existing risk standards and proposals,and it seeks to address the weaknesses found in these *** is in a process of continuous improvement,as is being applied by customers in several European and American *** consists of a risk data management module,a methodology for its systematic application and a tool that automates the process.

关键词： information security management security system security risk assessment and management

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My enemy’s enemies are my friends:Alternative sources of support in multi-party races

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Economic and Political studies 2024年第3期12卷 285-317页

作者： carlos Costa school of Public and International Affairs Wright State UniversityDaytonOHUSA

The research on redistributive strategies to secure support has been dominated by a core and swing voter model,which pits two parties against each other in a costly race for *** are other options beyond targeting either swing or one’s own core voters?This paper identifies a political scenario where core supporters from other parties are viable targets and sets out to test three dimensions that indicate when actors can effectively target *** paper’s main expectation is that by accounting for voters’ideological affinity,levels of fragmentation,and the potential to deliver their votes,parties can effectively target other parties’core *** case of Brazil’s Bolsa Famılia delivers evidence for the hypotheses.

关键词： Multi-party races coreand swing conditionalcash transfer BolsaFamılia

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