A5045103038- Scientific Computing and Data Management
- Distributed and Parallel Computing Systems
- Service-Oriented Architecture and Web Services
- Computational Physics and Python Applications
- Parallel Computing and Optimization Techniques
- Simulation Techniques and Applications
- Research Data Management Practices
- Advanced Data Storage Technologies
- Business Process Modeling and Analysis
- Plant nutrient uptake and metabolism
- Glioma Diagnosis and Treatment
- Genomics and Phylogenetic Studies
- Cloud Computing and Resource Management
- MicroRNA in disease regulation
- Gene expression and cancer classification
- Electrohydrodynamics and Fluid Dynamics
- Amino Acid Enzymes and Metabolism
- Enhanced Oil Recovery Techniques
- Circular RNAs in diseases
- Single-cell and spatial transcriptomics
- Cancer-related molecular mechanisms research
- Embedded Systems Design Techniques
- Systemic Sclerosis and Related Diseases
- Infectious Aortic and Vascular Conditions
- Experimental Learning in Engineering
AGH University of Krakow
2009-2022
Akademickie Centrum Komputerowe Cyfronet AGH
2022
Earlham Institute
2017
University of Amsterdam
2004-2012
Vrije Universiteit Amsterdam
2006-2011
Institute of Computer Science
2003-2010
Amsterdam University of the Arts
2008-2009
Krakow Cardiovascular Research Institute
2006
Abstract PRIMAGE is one of the largest and more ambitious research projects dealing with medical imaging, artificial intelligence cancer treatment in children. It a 4-year European Commission-financed project that has 16 partners consortium, including Society for Paediatric Oncology, two imaging biobanks, three prominent paediatric oncology units. The constructed as an observational silico study involving high-quality anonymised datasets (imaging, clinical, molecular, genetics) training...
Early Warning Systems (EWS) can play a crucial role in mitigating the effects of natural disasters. Modern EWSs leverage wireless sensors for real-time monitoring phenomena and computing-intensive scientific applications scenario-based prediction analysis sensor data. This paper presents UrbanFlood Common Information Space (CIS), framework facilitating creation, deployment reliable operation early warning systems. CIS proposes reference architecture EWS provides services to address problems...
GridSpace 2 is a novel virtual laboratory framework enabling researchers to conduct experiments on Grid-based resources and other HPC infrastructures. facilitates exploratory development of by means scripts which can be written in number popular languages, including Ruby, Python Perl. The supplies repository gems interface low-level such as PBS queues, EGEE computing elements, scientific applications types Grid resources. Moreover, provides Web 2.0-based Experiment Workbench supporting...
Nature is observed at all scales; with multiscale modeling, scientists bring together several scales for a holistic analysis of phenomenon. The models on these different may require significant but also heterogeneous computational resources, creating the need distributed computing. A particularly demanding type models, tightly coupled, brings it number theoretical and practical issues. In this contribution, coupled model in-stent restenosis first theoretically examined its merits using...
The natural environment of proteins is the polar aquatic and hydrophobic (amphipathic) membrane. fuzzy oil drop model (FOD) used to characterize water-soluble proteins, as well its modified version FOD-M, enables a mathematical description presence influence diverse environments on protein structure. present work characterized structures membrane including those that act channels, for contrast. purpose analysis was verify possibility an external force field can be in simulation...
The ViroLab Virtual Laboratory is a collaborative platform for scientists representing multiple fields of expertise while working together on common scientific goals. This environment makes it possible to combine efforts computer scientists, virology and epidemiology experts experienced physicians support future advances in HIV-related research treatment. paper explains the challenges involved building modern, inter-organizational science gives an overview solutions these challenges....
The study of interactions between molecules belonging to different biochemical families (such as lipids and nucleic acids) requires specialized data analysis methods. This article describes the DNA Microarray Integromics Analysis Platform, a unique web application that focuses on computational integration "multi-omics" data. Our tool supports range complex analyses, including – among others low- high-level analyses microarray data, integrated transcriptomics lipidomics ability infer...
The idea of an application described through its workflow is becoming popular in the Grid community as a natural method functional decomposition application. It shows all important dependencies set connections data flow and/or control flow. As scientific workflows grow size and complexity, tool to assist end users necessary. In this paper we describe formal basis, design implementation such -- assistant which analyzes user requirements regarding results works with information registries that...
This paper presents an approach to programming and running scientific applications on grid cloud infrastructures based two principles: the first one is follow a component-based model, second apply flexible technology which allows for virtualization of underlying infrastructure. The solutions described in this include high-level composition deployment consisting scripting-based environment manager system architecture description language (ADL), dynamically managed pool component containers,...
<ns4:p>The Brassica Information Portal (BIP) is a centralised repository for phenotypic data. Trait data associated with research and breeding experiments conducted on crops, used as vegetables, livestock fodder biofuels, hosted the site, together information experimental plant materials used, well trial design. BIP an open access source project, built schema of CropStoreDB, such can provide trait management strategies any crop A new user interface programmatic submission/retrieval system...
The idea of an application described through its workflow is becoming popular in the Grid community as a natural method functional decomposition application. It shows all important dependencies set connections data flow and/or control flow. As scientific workflows grow size and complexity, tool to assist end users necessary. In this paper we describe formal basis, design implementation such -- assistant which analyzes user requirements regarding results works with information registries that...
<ns4:p>The Brassica Information Portal (BIP) is a centralised repository for brassica phenotypic data. The site hosts trait data associated with research and breeding experiments conducted on crops, that are used as oilseeds, vegetables, livestock forage fodder biofuels. A key feature the explicit management of meta-data describing provenance relationships between experimental plant materials, well trial design descriptors. BIP an open access source project, built schema CropStoreDB, such...
Currently available analyses of amyloid proteins reveal the necessity existence radical structural changes in transformation processes. The analysis carried out this paper based on model called fuzzy oil drop (FOD) and its modified form (FOD-M) allows quantifying role environment, particularly including aquatic environment. starting point basis for present presentation is statement about presence two fundamentally different methods organizing polypeptides into ordered conformations—globular...
Malignant gliomas are the most frequent primary brain tumors in adults. They genetically heterogenous and invariably recur due to incomplete surgery therapy resistance. Circulating tumor DNA (ctDNA) is a component of circulating cell-free (ccfDNA) represents genetic material that originates from or metastasis. Brain frequently located eloquent regions, which makes biopsy difficult impossible severe postoperative complications. The analysis ccfDNA patient's blood presents plausible...
Early Warning Systems (EWS) may become a powerful tool for mitigating the negative impact of natural disasters, especially when combined with advanced IT solutions - such as on-demand scenario simulations, semi-automatic assessment, or real-time analysis measurements from in-situ sensors. However, complex systems require proper computing environment supporting their development and operation. We propose Common Information Space (CIS), software framework facilitating design, deployment...
We present a reusable solution that supports users in combining single-scale models to create multiscale application. Our approach applies several programming tools allow compose applications using graphical interface, and provides an easy way execute these on international production infrastructures. extends the general purpose scripting of GridSpace platform with simple mechanisms for accessing resources, provided by Application Hosting Environment (AHE). apply our support construct...