Related papers: Public archives for biological image data

Astronomy has long had a working network of archives supporting the curation of publications and data. The discipline has already created many of the features which perplex other areas of science: (1) data repositories: (supra)national…

Web archives preserve unique and historically valuable information. They hold a record of past events and memories published by all kinds of people, such as journalists, politicians and ordinary people who have shared their testimony and…

The drive for reproducibility in the computational sciences has provoked discussion and effort across a broad range of perspectives: technological, legislative/policy, education, and publishing. Discussion on these topics is not new, but…

Bio image analysis has recently become one keystone of biological research but biologists tend to get lost in a plethora of available software and the way to adjust available tools to their own image analysis problem. We present BIII,…

The astounding success made by artificial intelligence (AI) in healthcare and other fields proves that AI can achieve human-like performance. However, success always comes with challenges. Deep learning algorithms are data-dependent and…

Data archives are an important source of high quality data in many fields, making them ideal sites to study data reuse. By studying data reuse through citation networks, we are able to learn how hidden research communities - those that use…

In order to evaluate, compare, and tune graph algorithms, experiments on well designed benchmark sets have to be performed. Together with the goal of reproducibility of experimental results, this creates a demand for a public archive to…

Academic medical centers are generating an increasing amount of biomedical data and there is an increasing demand for biomedical data for research purposes by research projects, research consortia, companies, and other third parties. At the…

Model-based approaches for image reconstruction, analysis and interpretation have made significant progress over the last decades. Many of these approaches are based on either mathematical, physical or biological models. A challenge for…

Modern biomedical applications often involve time-series data, from high-throughput phenotyping of model organisms, through to individual disease diagnosis and treatment using biomedical data streams. Data and tools for time-series analysis…

With SKA precursor and pathfinder operations in full swing, radio and (sub-)mm astronomy is entering the era of super big data. The big questions is how to make (sub-)mm and radio data available to the astronomical community, preferably…

Web archive analytics is the exploitation of publicly accessible web pages and their evolution for research purposes -- to the extent organizationally possible for researchers. In order to better understand the complexity of this task, the…

To improve the quality and efficiency of research, groups within the scientific community seek to exploit the value of data sharing. Funders, institutions, and specialist organizations are developing and implementing strategies to encourage…

Progress in many domains increasingly benefits from our ability to view the systems through a computational lens, i.e., using computational abstractions of the domains; and our ability to acquire, share, integrate, and analyze disparate…

Biologists are increasingly using databases for storing and managing their data. Biological databases typically consist of a mixture of raw data, metadata, sequences, annotations, and related data obtained from various sources. Current…

The importance of datasharing is of increasing concern to funding bodies and institutions. With some prescience, the radiobiology community has established data sharing infrastructures over the last two decades, including STORE; however,…

Biology is at the precipice of a new era where AI accelerates and amplifies the ability to study how cells operate, organize, and work as systems, revealing why disease happens and how to correct it. Organizations globally are prioritizing…

In the recent years, there has been significant advancement in the areas of scientific data management and retrieval techniques, especially in terms of standards and protocols for archiving data. Oak Ridge National Laboratory Distributed…

The ubiquity of computation in modern scientific research inflicts new challenges for reproducibility. While most journals now require code and data be made available, the standards for organization, annotation, and validation remain lax,…

The Brain Imaging Data Structure (BIDS) is a community-driven standard for the organization of data and metadata from a growing range of neuroscience modalities. This paper is meant as a history of how the standard has developed and grown…