27 papers · ranked by Valyu relevance
Authors not listed
The nanosafety domain has seen significant advancements in data generation and sharing, yet challenges remain in ensuring data interoperability and reuse. This article focuses on developing a semantic interoperability framework for nanosafety data to maximize the FAIRness (Findability, Accessibility, Interoperability…
Pablo Pareja-Tobes, Raquel Tobes, Marina Manrique, Eduardo Pareja + 1 more
Next Generation Sequencing and other high-throughput technologies have brought a revolution to the bioinformatics landscape, by offering sheer amounts of data about previously unaccessible domains in a cheap and scalable way. However, fast, reproducible, and cost-effective data analysis at such scale remains elusive. A…
Fredrik Barrenäs, Sreenivas Chavali, Alexessander Couto Alves, Lachlan Coin + 7 more
'Lachlan Coin' 'Marjo-Riitta Jarvelin' 'Rebecka Jörnsten' 'Michael A Langston' 'Adaikalavan Ramasamy' 'Gary Rogers' 'Hui Wang' 'Mikael Benson'] Background Complex diseases are associated with altered interactions between thousands of genes. We developed a novel method to identify and prioritize disease genes, which was…
Wan-Ying Chang, Maryah Garner, Jodi Basner, Bruce Weinberg + 1 more
'Jason Owen-Smith'] This article presents a new framework for realizing the value of linked data understood as a strategic asset and increasingly necessary form of infrastructure for policy-making and research in many domains. We outline a framework, the ‘data mosaic’ approach, which combines socio-organizational and…
Darrell O. Ricke, James Harper, Anna Shcherbina, Nelson Chiu
Capabilities for generating and storing large amounts of data relevant to individual health and performance are rapidly evolving and have the potential to accelerate progress toward quantitative and individualized understanding of many important issues in health and medicine. Recent advances in clinical and laboratory…
Teruaki Hayashi, Yukio Ohsawa
Recently, data exchange platforms have emerged in the digital economy to enable better resource allocation in a data-driven society, which requires crossorganizational data collaborations. Understanding the characteristics of the data on these platforms is important for their application; however, the structures of…
Amaryllis Mavragani, Sylvia Thun, Robert Niebler, Anna Piętocha + 5 more
Registries have long been a cornerstone of medical research and public health, providing systematically collected data on diseases, treatments, and health outcomes. However, in the era of digital health, we argue that the traditional model of stand-alone registries needs reconsideration, given the context of…
Fernando A.N. Santos, Prejaas K.B. Tewarie, Pierre Baudot, Antonio Luchicchi + 16 more
Network theory is often based on pairwise relationships between nodes, which is not necessarily realistic for modeling complex systems. Importantly, it does not accurately capture non-pairwise interactions in the human brain, often considered one of the most complex systems. In this work, we develop a multivariate…
Nizar N Batada, Laurence D Hurst, Mike Tyers, Robert Russell
It has been claimed that proteins with more interaction partners (hubs) are both physiologically more important (i.e., less dispensable) and, owing to an assumed high density of binding sites, slow evolving. Not all analyses, however, support these results, probably because of biased and less-than reliable global…
Authors not listed
Background: Chemical reactions form intricate, highly connected networks whose exploration is essential for discovering more efficient and sustainable synthetic routes. As reaction data from literature, patents, and high‑throughput experimentation continue to surge, so does the need for tools that can collectively…
Hong Ki Kim, Yong Hun Jang, Hee Soo Kim, Won Young Kang + 2 more
High-Performance Computing Authors: ['Hong Ki Kim' 'Yong Hun Jang' 'Hee Soo Kim' 'Won Young Kang' 'Young‐Chai Ko' 'Sang Hyun Lee'] Interconnection networks, or 'interconnects,' play a crucial role in administering the communication among computing units of high-performance computing (HPC) systems. Efficient…
Simon Thompson
The Cambrian explosion of Trusted Research Environments (TREs) will inevitably lead to increased data siloing and potentially decrease achievable data science. Federated access to data is a mitigation against this risk. The presentation will cover two major infrastructure demonstrator projects to address this need and…
Nicolas Sundqvist, Sebastian Sten, Maria Engström, Gunnar Cedersund
The neurovascular coupling (NVC) connects cerebral activity, blood flow, and metabolism. This interconnection is used in for instance functional imaging, which analyses the blood-oxygen-dependent (BOLD) signal. The mechanisms underlying the NVC are complex, which warrants a model-based analysis of data. We have…
Ramanathan V. Guha, Prashanth Radhakrishnan, Bo Xu, Wei Sun + 9 more
'Carolyn Au' 'Ajai Tirumali' 'Muhammad Jehangir Amjad' 'Samantha N. Piekos' 'Natalie Diaz' 'Jennifer Chen' 'Julia Wu' 'Prem Ramaswami' 'James Manyika'] Publicly available data from open sources (e.g., United States Census Bureau (Census) [1], World Health Organization (WHO) [2], Intergovernmental Panel on Climate…
Anders K. Krabberød, Ina M. Deutschmann, Marit F. M. Bjorbækmo, Vanessa Balagué + 6 more
Ocean microbes constitute ∼70% of the marine biomass, are responsible for ∼50% of the Earth’s primary production, and are crucial for global biogeochemical cycles. Marine microbiotas include core taxa that are usually key for ecosystem function. Despite their importance, core marine microbes are relatively unknown…
Jiwen Xin, Cyrus Afrasiabi, Sebastien Lelong, Julee Adesara + 3 more
Application Programming Interfaces (APIs) are now widely used to distribute biological data. And many popular biological APIs developed by many different research teams have adopted Javascript Object Notation (JSON) as their primary data format. While usage of a common data format offers significant advantages, that…
Martin Starman, Fabian Kirchner, Martin Held, Catriona Eschke + 4 more
Electronic Lab Notebooks (ELNs) have become indispensable tools for modern research laboratories, facilitating data management, collaboration, and documentation of scientific experiments. However, the proliferation of diverse ELN platforms poses challenges for researchers who need to seamlessly exchange data between…
Tim Joda, Tuomas Waltimo, Christiane Pauli-Magnus, Nicole Probst-Hensch + 1 more
Population-based linkage of patient-level information opens new strategies for dental research to identify unknown correlations of diseases, prognostic factors, novel treatment concepts and evaluate healthcare systems. As clinical trials have become more complex and inefficient, register-based controlled (clinical)…
Larissa Suzuki, Anthony Finkelstein
The systems that operate the infrastructure of cities have evolved in a fragmented fashion across several generations of technology, causing city utilities and services to operate sub-optimally and limiting the creation of new value-added services and restrict opportunities for cost-saving. The integration of…
Monika Vogler, Jonas Busk, Hamidreza Hajiyani, Peter Bjørn Jørgensen + 9 more
The future of materials science is borderless, cooperative, and distributed across the globe. This necessitates flexible, reconfigurable software defined research workflows, which we herein demonstrate by integrating multiple disciplines and modalities. Our brokering approach to research orchestration exposes entire…
Michael Statt, Brian Rohr, Dan Guevarra, Ja'Nya Breeden + 2 more
Materials knowledge is inherently hierarchical. While high-level descriptors such as composition and structure are valuable for contextualizing materials data, the data must ultimately be considered in the context of its low-level acquisition details. Graph databases offer an opportunity to represent hierarchical…
Danilo B. Fernandes, Douglas L. L. Moura, Gean Santos, Geymerson S. Ramos + 2 more
'Geymerson S. Ramos' 'Fabiane Queiroz' 'André L. L. Aquino'] The rapid urbanization growth has underscored the need for innovative solutions to enhance transportation efficiency and safety. Intelligent Transportation Systems (ITS) have emerged as a promising solution in this context. However, analyzing and processing…
Kyriakos Sideris, Reza Nejabati, Dimitra Simeonidou
–Network complexity is increasing, making network control and orchestration a challenging task. The proliferation of network information and tools for data analytics can provide an important insight into resource provisioning and optimisation. The network knowledge incorporated in software defined networking can…
Micah Beck, Terry Moore, Piotr Łuszczek, Anthony Danalis
In every form of digital store-and-forward communication, intermediate forwarding nodes are computers, with attendant memory and processing resources. This has inevitably stimulated efforts to create a wide-area infrastructure that goes beyond simple store-and-forward to create a platform that makes more general and…
Michael Statt, Kristopher Brown, Santosh Suram, Linda Hung + 3 more
In this work, we present DBgen, a Python library that provides a framework for defining extract-transform-load (ETL) pipelines to create and populate SQL databases. DBgen is most useful when the underlying data has complex relationships, requires multi-step analysis, is large-scale, and the type of data being collected…
Authors not listed
Next Generation Risk Assessment (NGRA) promotes animal-free, exposure-informed, and hypothesis-driven approaches to chemical safety assessment. In silico tools, such as quantitative structure-activity relationship (QSAR) models, are valuable new approach methodologies (NAMs) for use in NGRA. However, the practical…
Joshua Hesse, Davide Boldini, Stephan Sieber
In the rapidly evolving field of drug discovery, High Throughput Screening (HTS) is a pivotal technique for identifying promising compounds. Despite its wide usage, the primary challenge remains in efficiently sifting through vast chemical libraries to discern true bioactive compounds from false positives. This study…