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Nowadays, data-intensive applications face the problem of handling heterogeneous data with sometimes mutually exclusive use cases and soft non-functional goals such as consistency and availability. Since no single platform copes everything,…
Nowadays, many decision support applications need to exploit data that are not only numerical or symbolic, but also multimedia, multistructure, multisource, multimodal, and/or multiversion. We term such data complex data. Managing and…
Metal-organic frameworks (MOFs) are porous materials composed of metal ions and organic linkers. Due to their chemical diversity, MOFs can support a broad range of applications in chemical separations. However, the vast amount of structural…
In recent years, emerging storage hardware technologies have focused on divergent goals: better performance or lower cost-per-bit. Correspondingly, data systems that employ these technologies are typically optimized either to be fast (but…
In the past few years, the number of OLAP applications increased quickly. These applications use two significantly different DB structures: multidimensional (MD) and table-based. One can show that the traditional model of relational…
Big Data is considered proprietary asset of companies, organizations, and even nations. Turning big data into real treasure requires the support of big data systems. A variety of commercial and open source products have been unleashed for…
Multidimensional databases support efficiently on-line analytical processing (OLAP). In this paper, we depict a model dedicated to multidimensional databases. The approach we present designs decisional information through a constellation of…
This paper presents a method for the automated collection and aggregation of unstructured data from diverse web sources, utilizing Large Language Models (LLMs). The primary challenge with existing techniques is their instability when the…
Genome-scale stoichiometric modeling of metabolism has become a standard systems biology tool for modeling cellular physiology and growth. Extensions of this approach are also emerging as a valuable avenue for predicting, understanding and…
We present GobyWeb, a web-based system to facilitate the management and analysis of high-throughput sequencing (HTS) projects. The software provides integrated support for a broad set of HTS analyses and offers a simple plugin extension…
Scientific applications produce a huge amount of data, which imposes serious management and analysis challenges. In particular, limitations in current database management systems prevent their adoption in simulation applications, in which…
The well-known 3V architectural paradigm for Big Data introduced by Laney (2011), provides a simplified framework for defining the architecture of a big data platform to be deployed in various scenarios tackling processing of massive…
Working with complex, high-level MOEA meta-models such as Multiobjec-tive Optimization Hierarchic Genetic Strategy (MO-mHGS) with multi-deme support usually requires dedicated implementation and configuration for each internal (single-deme)…
This paper introduces madupite, a high-performance distributed solver for large-scale Markov Decision Processes (MDPs). MDPs are widely used to model complex dynamical systems in various fields, including finance, epidemiology, and traffic…
Metagenomics has led to significant advances in many fields. Metagenomic analysis commonly involves the key tasks of determining the species present in a sample and their relative abundances. These tasks require searching large metagenomic…
Motivation: There is accumulating evidence showing the important roles of bacteriophages (phages) in regulating the structure and functions of the microbiome. However, lacking an easy-to-use and integrated phage analysis software hampers…
Experimental materials data are heterogeneous and include a variety of metadata for processing and characterization conditions, making the implementation of data-driven approaches for developing novel materials difficult. In this paper, we…
Metabolomic data sets provide a direct read-out of cellular phenotypes and are increasingly generated to study biological questions. Our previous work revealed the potential of analyzing extracellular metabolomic data in the context of the…
When it comes to storing 3D city models in a database, the implementation of the CityGML data model can be quite demanding and often results in complicated schemas. As an example, 3DCityDB, a widely used solution, depends on a schema having…
Knowledge extraction from database is the fundamental task in database and data mining community, which has been applied to a wide range of real-world applications and situations. Different from the support-based mining models, the…