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The reproducibility of scientific research has become a point of critical concern. We argue that openness and transparency are critical for reproducibility, and we outline an ecosystem for open and transparent science that has emerged…
We describe a scalable database cluster for the spatial analysis and annotation of high-throughput brain imaging data, initially for 3-d electron microscopy image stacks, but for time-series and multi-channel data as well. The system was…
Optical imaging of the brain has expanded dramatically in the past two decades. New optics, indicators, and experimental paradigms are now enabling in-vivo imaging from the synaptic to the cortex-wide scales. To match the resulting flood of…
Neuroscience research has expanded dramatically over the past 30 years by advancing standardization and tool development to support rigor and transparency. Consequently, the complexity of the data pipeline has also increased, hindering…
Across the life sciences, an ongoing effort over the last 50 years has made data and methods more reproducible and transparent. This openness has led to transformative insights and vastly accelerated scientific progress. For example,…
Novel compute systems are an emerging research topic, aiming towards building next-generation compute platforms. For these systems to thrive, they need to be provided as research infrastructure to allow acceptance and usage by a large…
In recent years, deep learning revolutionized machine learning and its applications, producing results comparable to human experts in several domains, including neuroscience. Each year, hundreds of scientific publications present…
The proliferation of sensor technologies and advancements in data collection methods have enabled the accumulation of very large amounts of data. Increasingly, these datasets are considered for scientific research. However, the design of…
With the rapid advancement of brain-computer interface (BCI) technology, the volume of physiological data generated in related research and applications has grown significantly. Data is a critical resource in BCI research and a key factor…
Deep Learning has revolutionized various fields, including Computer Vision, Natural Language Processing, as well as Biomedical research. Within the field of neuroscience, specifically in electrophysiological neuroimaging, researchers are…
Functional optical imaging in neuroscience is rapidly growing with the development of new optical systems and fluorescence indicators. To realize the potential of these massive spatiotemporal datasets for relating neuronal activity to…
Neuroscience is undergoing faster changes than ever before. Over 100 years our field qualitatively described and invasively manipulated single or few organisms to gain anatomical, physiological, and pharmacological insights. In the last 10…
Neurophysiology research has demonstrated that it is possible and valuable to investigate sensory processing in scenarios involving continuous sensory streams, such as speech and music. Over the past 10 years or so, novel analytic…
We describe a system for meta-analysis where a wiki stores numerical data in a simple format and a web service performs the numerical computation. We initially apply the system on multiple meta-analyses of structural neuroimaging data…
Neuroscientists are now able to acquire data at staggering rates across spatiotemporal scales. However, our ability to capitalize on existing datasets, tools, and intellectual capacities is hampered by technical challenges. The key barriers…
The recent explosion of recorded digital data and its processed derivatives threatens to overwhelm researchers when analysing their experimental data or when looking up data items in archives and file systems. While current hardware…
GitHub is the world's largest platform for collaborative software development, with over 100 million users. GitHub is also used extensively for open data collaboration, hosting more than 800 million open data files, totaling 142 terabytes…
An important topic in medical research is the process of improving the images obtained from medical devices. As a consequence, there is also a need to improve medical image resolution and analysis. Another issue in this field is the large…
Advances in information technology and its widespread growth in several areas of business, engineering, medical and scientific studies are resulting in information/data explosion. Knowledge discovery and decision making from such rapidly…
Accurate reconstruction of neuronal morphology is essential for classifying cell types and understanding brain connectivity. Recent advances in imaging and reconstruction techniques have greatly expanded the scale and quality of neuronal…