Related papers: Reliable and interoperable computational molecular…
Ontology engineering (OE) in large projects poses a number of challenges arising from the heterogeneous backgrounds of the various stakeholders, domain experts, and their complex interactions with ontology designers. This multi-party…
We present DINGO (Data INtegration for Grants Ontology), an ontology that provides a machine readable extensible framework to model data for semantically-enabled applications relative to projects, funding, actors, and, notably, funding…
Entity matching (EM) is a critical task in data integration, aiming to identify records across different datasets that refer to the same real-world entities. Traditional methods often rely on manually engineered features and rule-based…
The use of Semantic Technologies - in particular the Semantic Web - has revealed to be a great tool for describing the cultural heritage domain and artistic practices. However, the panorama of ontologies for musicological applications seems…
Jjodel is a cloud-based reflective platform designed to address the challenges of Model-Driven Engineering (MDE), particularly the cognitive complexity and usability barriers often encountered in existing model-driven tools. This article…
Multi-table entity matching (MEM) addresses the limitations of dual-table approaches by enabling simultaneous identification of equivalent entities across multiple data sources without unique identifiers. However, existing methods relying…
In requirements specification, software engineers create a textual description of the envisioned system as well as develop conceptual models using such tools as Universal Modeling Language (UML) and System Modeling Language (SysML). One…
This study proposes MCEMOL (Multi-Constrained Evolutionary Molecular Design Framework), a molecular optimization approach integrating rule-based evolution with molecular crossover. MCEMOL employs dual-layer evolution: optimizing…
In order to effectively manage the overwhelming influx of data, it is crucial to ensure that data is findable, accessible, interoperable, and reusable (FAIR). While ontologies and knowledge graphs have been employed to enhance FAIRness,…
Ontology matching (OM) enables semantic interoperability between different ontologies and resolves their conceptual heterogeneity by aligning related entities. OM systems currently have two prevailing design paradigms: conventional…
We propose a small, shared core ontology for particle accelerators that provides a semantic backbone for interoperable data and workflows across facilities. The ontology names key device types, signals, parameters, and regions, and relates…
Biological multimodal large language models (MLLMs) have emerged as powerful foundation models for scientific discovery. However, existing models are specialized to a single modality, limiting their ability to solve inherently cross-modal…
The Simulation Environment for Atomistic and Molecular Modeling (SEAMM) is an open-source software package written in Python that provides a graphical interface for setting up, executing, and analyzing molecular and materials simulations.…
The Multilingual Semantic Web has been in focus for over a decade. Multilingualism in Linked Data and RDF has shown substantial adoption, but this is unclear for ontologies since the last review 15 years ago. One of the design goals for OWL…
Molecular simulation is a scientific tool dealing with challenges in material science and biology. This is reflected in a permanent development and enhancement of algorithms within scientific simulation packages. Here, we present…
This paper studies the role that ontologies can play in establishing conceptual data models during the process of information systems development. A mapping algorithm has been proposed and embedded in a special purpose Transformation-Engine…
The present work is inscribed within the intersection of two scientific thematic: the engineering by reuse of components and ontologies alignment. The integration of Business Components (BC) is a research problem that has been identified in…
Quantum mechanics/molecular mechanics (QM/MM) hybrid models allow one to address chemical phenomena in complex molecular environments. Whereas this modeling approach can cope with a large system size at moderate computational costs, the…
Imaging data is one of the most important fundamentals in the current life sciences. We aimed to construct an ontology to describe imaging metadata as a data schema of the integrated database for optical and electron microscopy images…
A novel multi-scale finite element formulation for contact mechanics between nominally smooth but microscopically rough surfaces is herein proposed. The approach integrates the interface finite element method (FEM) for modelling interface…