Onedata4Sci: Life science data management solution based on Onedata

Life-science experimental methods generate vast and ever-increasing volumes of data, which provide highly valuable research resources. However, management of these data is nontrivial and applicable software solutions are currently subject to intensive development. The solutions mainly fall into one of the two groups: general data management systems (e.g. Onedata, iRODS, B2SHARE, CERNBox) or very specialised data management solutions (e.g. solutions for biomolecular simulation data, biological imaging data, genomic data). To bridge this gap between them, we provide Onedata4Sci, a prototype data management solution, which is focused on the management of life science data and covers four key steps of the data life cycle, i.e. data acquisition, user access, computational processing and archiving. Onedata4Sci is based on the Onedata data management system. It is written in Python, fully containerised, with the support for processing the stored data in Kubernetes. The applicability of Onedata4Sci is shown in three distinct use cases -- plant imaging data, cellular imaging data, and cryo-electron microscopy data. Despite the use cases covering very different types of data and user patterns, Onedata4Sci demonstrated an ability to successfully handle all these conditions. Complete source codes of Onedata4Sci are available on GitHub (https://github.com/CERIT-SC/onedata4sci), and its documentation and manual for installation are also provided

A survey of the European Open Science Cloud services for expanding the capacity and capabilities of multidisciplinary scientific applications

Open Science is a paradigm in which scientific data, procedures, tools and results are shared transparently and reused by society as a whole. The initiative known as the European Open Science Cloud (EOSC) is an effort in Europe to provide an open, trusted, virtual and federated computing environment to execute scientific applications, and to store, share and re-use research data across borders and scientific disciplines. Additionally, scientific services are becoming increasingly data-intensive, not only in terms of computationally intensive tasks but also in terms of storage resources. Computing paradigms such as High Performance Computing (HPC) and Cloud Computing are applied to e-science applications to meet these demands. However, adapting applications and services to these paradigms is not a trivial task, commonly requiring a deep knowledge of the underlying technologies, which often constitutes a barrier for its uptake by scientists in general. In this context, EOSC-SYNERGY, a collaborative project involving more than 20 institutions from eight European countries pooling their knowledge and experience to enhance EOSC\u27s capabilities and capacities, aims to bring EOSC closer to the scientific communities. This article provides a summary analysis of the adaptations made in the ten thematic services of EOSC-SYNERGY to embrace this paradigm. These services are grouped into four categories: Earth Observation, Environment, Biomedicine, and Astrophysics. The analysis will lead to the identification of commonalities, best practices and common requirements, regardless of the thematic area of the service. Experience gained from the thematic services could be transferred to new services for the adoption of the EOSC ecosystem framework

Mitochondrial physiology

As the knowledge base and importance of mitochondrial physiology to evolution, health and disease expands, the necessity for harmonizing the terminology concerning mitochondrial respiratory states and rates has become increasingly apparent. The chemiosmotic theory establishes the mechanism of energy transformation and coupling in oxidative phosphorylation. The unifying concept of the protonmotive force provides the framework for developing a consistent theoretical foundation of mitochondrial physiology and bioenergetics. We follow the latest SI guidelines and those of the International Union of Pure and Applied Chemistry (IUPAC) on terminology in physical chemistry, extended by considerations of open systems and thermodynamics of irreversible processes. The concept-driven constructive terminology incorporates the meaning of each quantity and aligns concepts and symbols with the nomenclature of classical bioenergetics. We endeavour to provide a balanced view of mitochondrial respiratory control and a critical discussion on reporting data of mitochondrial respiration in terms of metabolic flows and fluxes. Uniform standards for evaluation of respiratory states and rates will ultimately contribute to reproducibility between laboratories and thus support the development of data repositories of mitochondrial respiratory function in species, tissues, and cells. Clarity of concept and consistency of nomenclature facilitate effective transdisciplinary communication, education, and ultimately further discovery

Mitochondrial physiology

As the knowledge base and importance of mitochondrial physiology to evolution, health and disease expands, the necessity for harmonizing the terminology concerning mitochondrial respiratory states and rates has become increasingly apparent. The chemiosmotic theory establishes the mechanism of energy transformation and coupling in oxidative phosphorylation. The unifying concept of the protonmotive force provides the framework for developing a consistent theoretical foundation of mitochondrial physiology and bioenergetics. We follow the latest SI guidelines and those of the International Union of Pure and Applied Chemistry (IUPAC) on terminology in physical chemistry, extended by considerations of open systems and thermodynamics of irreversible processes. The concept-driven constructive terminology incorporates the meaning of each quantity and aligns concepts and symbols with the nomenclature of classical bioenergetics. We endeavour to provide a balanced view of mitochondrial respiratory control and a critical discussion on reporting data of mitochondrial respiration in terms of metabolic flows and fluxes. Uniform standards for evaluation of respiratory states and rates will ultimately contribute to reproducibility between laboratories and thus support the development of data repositories of mitochondrial respiratory function in species, tissues, and cells. Clarity of concept and consistency of nomenclature facilitate effective transdisciplinary communication, education, and ultimately further discovery

Musicum opus

For 4-24 mixed voices. --- Vols. 2-7 have imprint: Wien, Artaria & co.; Leipzig, Breitkopf & Härtel. --- Originally published in four volumes, each in eight part-books. --- Latin words. Biblical or liturgical texts. --- Reprint of 1899 edition