28 results match your criteria: "Poznan Supercomputing and Networking Center[Affiliation]"

Esports refers to competitive video gaming where individuals compete against each other in organized tournaments for prize money. Here, we present the Competitive Esports Physiological, Affective, and Video (CEPAV) dataset, in which 300 male Counter Strike: Global Offensive gamers participated in a study aimed at optimizing affect during esports tournament. The CEPAV dataset includes (1) physiological data, capturing the player's cardiovascular responses from before, during, and after over 3000 CS: GO matches; (2) self-reported affective data, detailing the affective states experienced before gameplay; and (3) video data, providing a visual record of 552 in-laboratory gaming sessions.

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<b>Introduction:</b> Computer-based interactive techniques are becoming an important tool in medical education. One of the important benefits of the use of telemedicine in surgical training is the reduction of the number of people in the operating room. As shown in the studies, this can lead i.

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Systematic hand-held echocardiography in patients hospitalized with acute coronary syndrome.

Eur Heart J Cardiovasc Imaging

September 2024

British Heart Foundation Centre for Cardiovascular Science, University of Edinburgh, 47 Little France Crescent, Edinburgh EH16 4TJ, UK.

Aims: Transthoracic echocardiography is recommended in all patients with acute coronary syndrome but is time-consuming and lacks an evidence base. We aimed to assess the feasibility, diagnostic accuracy, and time efficiency of hand-held echocardiography in patients with acute coronary syndrome and describe the impact of echocardiography on clinical management in this setting.

Methods And Results: Patients with acute coronary syndrome underwent both hand-held and transthoracic echocardiographies with agreement between key imaging parameters assessed using kappa statistics.

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Quantum-key-distribution (QKD) networks are gaining importance and it has become necessary to analyze the most appropriate methods for their long-distance interconnection. In this paper, four different methods of interconnecting remote QKD networks are proposed. The methods are used to link three different QKD testbeds in Europe, located in Berlin, Madrid, and Poznan.

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We introduce a new approach towards generative quantum machine learning significantly reducing the number of hyperparameters and report on a proof-of-principle experiment demonstrating our approach. Our proposal depends on collaboration between the generators and discriminator, thus, we call it quantum synergic generative learning. We present numerical evidence that the synergic approach, in some cases, compares favorably to recently proposed quantum generative adversarial learning.

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Background: The COVID-19 pandemic has affected education at all levels in various ways. This paper provides a review of the literature on the challenges of online learning for children with special educational needs and disabilities (SEND).

Method: In total, 17 studies from nine countries were analysed.

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The pioneering nature of this work covers the answers to two questions: (1) Is an up-to-date anatomical model of the larynx needed for modern endoscopic diagnostics, and (2) can such a digital segmentation model be utilized for deep learning purposes. The idea presented in this article has never been proposed before, and this is a breakthrough in numerical approaches to aerodigestive videoendoscopy imaging. The approach described in this article assumes defining a process for data acquisition, integration, and segmentation (labeling), for the needs of a new branch of knowledge: digital medicine and digital diagnosis support expert systems.

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Chronic Kidney Disease as a Cardiovascular Disorder-Tonometry Data Analyses.

Int J Environ Res Public Health

September 2022

Department of Medical Chemistry and Laboratory Medicine, Poznan University of Medical Sciences, 60-806 Poznan, Poland.

Tonometry is commonly used to provide efficient and good diagnostics for cardiovascular disease (CVD). There are many advantages of this method, including low cost, non-invasiveness and little time to perform. In this study, the effort was undertaken to check whether tonometry data hides valuable information associated with different stages of chronic kidney disease (CKD) and end-stage renal disease (ESRD) treatment.

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RNAloops: a database of RNA multiloops.

Bioinformatics

September 2022

Institute of Computing Science, Poznan University of Technology, 60-965 Poznan, Poland.

Article Synopsis
  • Understanding the 3D structure of RNA is vital for drug design and therapy, highlighting the significance of multi-branched loops in its overall shape.
  • RNAloops is a self-updating database that catalogs these multi-branched loops found in RNA structures, providing detailed angular data for analysis.
  • The RNAloops database is freely accessible online, with additional supplementary information available through Bioinformatics.
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Patients with chronic kidney disease (CKD), especially those who are hemodialyzed (HD), are at significantly high risk of contracting cardiovascular disease and having increased mortality. This study aimed to find potential death predictors, the measurement of which may reflect increased mortality in HD patients, and then combine the most promising ones in frames of a simple death risk assessment model. For this purpose, HD patients (n=71) with acute myocardial infarction in the last year (HD group) and healthy people (control group) as a comparative group (n=32) were included in the study.

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Subjective experience and physiological activity are fundamental components of emotion. There is an increasing interest in the link between experiential and physiological processes across different disciplines, e.g.

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The synergy between Artificial Intelligence and the Edge Computing paradigm promises to transfer decision-making processes to the periphery of sensor networks without the involvement of central data servers. For this reason, we recently witnessed an impetuous development of devices that integrate sensors and computing resources in a single board to process data directly on the collection place. Due to the particular context where they are used, the main feature of these boards is the reduced energy consumption, even if they do not exhibit absolute computing powers comparable to modern high-end CPUs.

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We present the VECMA toolkit (VECMAtk), a flexible software environment for single and multiscale simulations that introduces directly applicable and reusable procedures for verification, validation (V&V), sensitivity analysis (SA) and uncertainty quantication (UQ). It enables users to verify key aspects of their applications, systematically compare and validate the simulation outputs against observational or benchmark data, and run simulations conveniently on any platform from the desktop to current multi-petascale computers. In this sequel to our paper on VECMAtk which we presented last year [1] we focus on a range of functional and performance improvements that we have introduced, cover newly introduced components, and applications examples from seven different domains such as conflict modelling and environmental sciences.

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Epidemiological modelling has assisted in identifying interventions that reduce the impact of COVID-19. The UK government relied, in part, on the CovidSim model to guide its policy to contain the rapid spread of the COVID-19 pandemic during March and April 2020; however, CovidSim contains several sources of uncertainty that affect the quality of its predictions: parametric uncertainty, model structure uncertainty and scenario uncertainty. Here we report on parametric sensitivity analysis and uncertainty quantification of the code.

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ElTetrado: a tool for identification and classification of tetrads and quadruplexes.

BMC Bioinformatics

January 2020

Institute of Computing Science and European Centre for Bioinformatics and Genomics, Poznan University of Technology, Piotrowo 2, Poznan, 60-965, Poland.

Article Synopsis
  • Quadruplexes are important structural motifs found in regions like telomeres, and recent research highlights their significance in biomedicine, especially with a focus on both canonical and non-canonical structures.
  • ElTetrado is a new software tool that identifies and classifies quadruplexes and tetrads based on their secondary structure topology, using a fresh classification system called ONZ.
  • The tool is freely available and offers graphical representations of quadruplex structures, enhancing the understanding of these motifs beyond just sequence and 3D structure analysis.
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Topology-based classification of tetrads and quadruplex structures.

Bioinformatics

February 2020

Department of Structural Bioinformatics, Institute of Bioorganic Chemistry, Polish Academy of Sciences, Poznan 61-704, Poland.

Article Synopsis
  • Quadruplexes are unique nucleic acid structures that are key in various biological processes and potential therapeutic targets, particularly for cancer and neurological diseases.
  • In this study, researchers analyzed the tetrads and quadruplexes from the Protein Data Bank, developing new graphical representations and classifications that include both canonical and non-canonical forms.
  • They created a method for automatically recognizing these structures and provided a link for public access to their classification tools and supplementary data.
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Lightning is a dangerous yet poorly understood natural phenomenon. Lightning forms a network of plasma channels propagating away from the initiation point with both positively and negatively charged ends-called positive and negative leaders. Negative leaders propagate in discrete steps, emitting copious radio pulses in the 30-300-megahertz frequency band that can be remotely sensed and imaged with high spatial and temporal resolution.

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Application of the extreme scaling computing pattern on multiscale fusion plasma modelling.

Philos Trans A Math Phys Eng Sci

April 2019

1 Max-Planck-Institut für Plasmaphysik , Garching , Germany.

The extreme scaling pattern of the ComPat project is applied to a multi-scale workflow relevant to the magnetically confined fusion problem. This workflow combines transport, turbulence and equilibrium codes (together with additional auxiliaries such as initial conditions and numerical module), which aims at calculating the behaviour of a fusion plasma on long (transport) time scales based on information from much faster (turbulence) time scales. Initial findings of profile measurements are reported in this paper and indicate that, depending on the chosen performance metric for defining 'cost', such as time to completion, efficiency and total energy consumption of the mutliscale workflow, different choices on the number of cores would be made when determining the optimal execution configuration.

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Predicting queue wait time probabilities for multi-scale computing.

Philos Trans A Math Phys Eng Sci

April 2019

2 Poznan Supercomputing and Networking Center , Institute of Bioorganic Chemistry of the Polish Academy of Sciences, ul Z. Noskowskiego 12/14 , 61-704 Poznan , Poland.

We describe a method for queue wait time prediction in supercomputing clusters. It was designed for use as a part of multi-criteria brokering mechanisms for resource selection in a multi-site High Performance Computing environment. The aim is to incorporate the time jobs stay queued in the scheduling system into the selection criteria.

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RNAfitme: a webserver for modeling nucleobase and nucleoside residue conformation in fixed-backbone RNA structures.

BMC Bioinformatics

August 2018

Institute of Computing Science & European Centre for Bioinformatics and Genomics, Poznan University of Technology, Piotrowo 2, 60-965, Poznan, Poland.

Background: Computational RNA 3D structure prediction and modeling are rising as complementary approaches to high-resolution experimental techniques for structure determination. They often apply to substitute or complement them. Recently, researchers' interests have directed towards in silico methods to fit, remodel and refine RNA tertiary structure models.

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Next generation sequencers produce billions of short DNA sequences in a massively parallel manner, which causes a great computational challenge in accurately reconstructing a genome sequence de novo using these short sequences. Here, we propose the GRASShopPER assembler, which follows an approach of overlap-layout-consensus. It uses an efficient GPU implementation for the sequence alignment during the graph construction stage and a greedy hyper-heuristic algorithm at the fork detection stage.

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RNApdbee 2.0: multifunctional tool for RNA structure annotation.

Nucleic Acids Res

July 2018

Institute of Computing Science, and European Centre for Bioinformatics and Genomics, Poznan University of Technology, Piotrowo 2, 60-965 Poznan, Poland.

In the field of RNA structural biology and bioinformatics, an access to correctly annotated RNA structure is of crucial importance, especially in the secondary and 3D structure predictions. RNApdbee webserver, introduced in 2014, primarily aimed to address the problem of RNA secondary structure extraction from the PDB files. Its new version, RNApdbee 2.

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Motivation: Understanding the formation, architecture and roles of pseudoknots in RNA structures are one of the most difficult challenges in RNA computational biology and structural bioinformatics. Methods predicting pseudoknots typically perform this with poor accuracy, often despite experimental data incorporation. Existing bioinformatic approaches differ in terms of pseudoknots' recognition and revealing their nature.

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LCS-TA to identify similar fragments in RNA 3D structures.

BMC Bioinformatics

October 2017

Institute of Computing Science & European Centre for Bioinformatics and Genomics, Poznan University of Technology, Piotrowo 2, 60-965, Poznan, Poland.

Background: In modern structural bioinformatics, comparison of molecular structures aimed to identify and assess similarities and differences between them is one of the most commonly performed procedures. It gives the basis for evaluation of in silico predicted models. It constitutes the preliminary step in searching for structural motifs.

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Background: Plant phenotypic data shrouds a wealth of information which, when accurately analysed and linked to other data types, brings to light the knowledge about the mechanisms of life. As phenotyping is a field of research comprising manifold, diverse and time-consuming experiments, the findings can be fostered by reusing and combining existing datasets. Their correct interpretation, and thus replicability, comparability and interoperability, is possible provided that the collected observations are equipped with an adequate set of metadata.

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