Journal: Journal of Integrative Bioinformatics

Abbreviation

Publisher

De Gruyter

Journal Volumes

ISSN

1613-4516

Description

Filters

2022 - 20243
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Publications 1 - 3 of 3
  • Bridging data management platforms and visualization tools to enable ad-hoc and smart analytics in life sciences
    Item type: Conference Paper
    Panse, Christian; Trachsel, Christian; Türker, Can (2022)
    Journal of Integrative Bioinformatics
    Core facilities have to offer technologies that best serve the needs of their users and provide them a competitive advantage in research. They have to set up and maintain instruments in the range of ten to a hundred, which produce large amounts of data and serve thousands of active projects and customers. Particular emphasis has to be given to the reproducibility of the results. More and more, the entire process from building the research hypothesis, conducting the experiments, doing the measurements, through the data explorations and analysis is solely driven by very few experts in various scientific fields. Still, the ability to perform the entire data exploration in real-time on a personal computer is often hampered by the heterogeneity of software, the data structure formats of the output, and the enormous data sizes. These impact the design and architecture of the implemented software stack. At the Functional Genomics Center Zurich (FGCZ), a joint state-of-the-art research and training facility of ETH Zurich and the University of Zurich, we have developed the B-Fabric system, which has served for more than a decade, an entire life sciences community with fundamental data science support. In this paper, we sketch how such a system can be used to glue together data (including metadata), computing infrastructures (clusters and clouds), and visualization software to support instant data exploration and visual analysis. We illustrate our in-daily life implemented approach using visualization applications of mass spectrometry data.
  • Leonhard Med, a trusted research environment for processing sensitive research data
    Item type: Journal Article
    Okoniewski, Michal J.; Wiegand, Anna; Schmid, Diana Coman; et al. (2024)
    Journal of Integrative Bioinformatics
    This paper provides an overview of the development and operation of the Leonhard Med Trusted Research Environment (TRE) at ETH Zurich. Leonhard Med gives scientific researchers the ability to securely work on sensitive research data. We give an overview of the user perspective, the legal framework for processing sensitive data, design history, current status, and operations. Leonhard Med is an efficient, highly secure Trusted Research Environment for data processing, hosted at ETH Zurich and operated by the Scientific IT Services (SIS) of ETH. It provides a full stack of security controls that allow researchers to store, access, manage, and process sensitive data according to Swiss legislation and ETH Zurich Data Protection policies. In addition, Leonhard Med fulfills the BioMedIT Information Security Policies and is compatible with international data protection laws and therefore can be utilized within the scope of national and international collaboration research projects. Initially designed as a "bare-metal" High-Performance Computing (HPC) platform to achieve maximum performance, Leonhard Med was later re-designed as a virtualized, private cloud platform to offer more flexibility to its customers. Sensitive data can be analyzed in secure, segregated spaces called tenants. Technical and Organizational Measures (TOMs) are in place to assure the confidentiality, integrity, and availability of sensitive data. At the same time, Leonhard Med ensures broad access to cutting-edge research software, especially for the analysis of human -omics data and other personalized health applications.
  • International symposium on integrative bioinformatics 2024 - editorial
    Item type: Other Journal Item
    Türker, Can; Panse, Christian; Sommer, Bjorn; et al. (2024)
    Journal of Integrative Bioinformatics
    Integrative Bioinformatics faces the challenge of integrating, aligning, modelling, and simulating data in a coherent fashion to gain deeper insights into complex biological systems. This special issue of the Journal of Integrative Bioinformatics consists of six articles accepted for the presentation at the "18th International Symposium on Integrative Bioinformatics" held in Z & uuml;rich on September 12-13, 2024. In addition, the symposium featured five keynote talks which will be discussed here as well.
Publications 1 - 3 of 3