Recommendations for repositories and scientific gateways from a neuroscience perspective

Digital services such as repositories and science gateways have become key resources for the neuroscience community, but users often have a hard time orienting themselves in the service landscape to find the best fit for their particular needs. INCF (International Neuroinformatics Coordinating Facility) has developed a set of recommendations and associated criteria for choosing or setting up and running a repository or scientific gateway, intended for the neuroscience community, with a FAIR neuroscience perspective. These recommendations have neurosciences as their primary use case but are often general. Considering the perspectives of researchers and providers of repositories as well as scientific gateways, the recommendations harmonize and complement existing work on criteria for repositories and best practices. The recommendations cover a range of important areas including accessibility, licensing, community responsibility and technical and financial sustainability of a service.Comment: 10 pages, submitted to Scientific Dat

A Standards Organization for Open and FAIR Neuroscience: the International Neuroinformatics Coordinating Facility

There is great need for coordination around standards and best practices in neuroscience to support efforts to make neuroscience a data-centric discipline. Major brain initiatives launched around the world are poised to generate huge stores of neuroscience data. At the same time, neuroscience, like many domains in biomedicine, is confronting the issues of transparency, rigor, and reproducibility. Widely used, validated standards and best practices are key to addressing the challenges in both big and small data science, as they are essential for integrating diverse data and for developing a robust, effective, and sustainable infrastructure to support open and reproducible neuroscience. However, developing community standards and gaining their adoption is difficult. The current landscape is characterized both by a lack of robust, validated standards and a plethora of overlapping, underdeveloped, untested and underutilized standards and best practices. The International Neuroinformatics Coordinating Facility (INCF), an independent organization dedicated to promoting data sharing through the coordination of infrastructure and standards, has recently implemented a formal procedure for evaluating and endorsing community standards and best practices in support of the FAIR principles. By formally serving as a standards organization dedicated to open and FAIR neuroscience, INCF helps evaluate, promulgate, and coordinate standards and best practices across neuroscience. Here, we provide an overview of the process and discuss how neuroscience can benefit from having a dedicated standards body

ACCS Discovery Report

Orchestration and Management of Data Generated by Big-Data Electron Microscopy Instruments: A Discovery Report (Work Package 4

A Standards Organization for Open and FAIR Neuroscience: the International Neuroinformatics Coordinating Facility

Item does not contain fulltext26 februari 202

*Corresponding author David Abramson, Shahaan Ayyub,

Abstract: This paper describes the coordination, design and implementation o

Lessons learned through driving science applications in the PRAGMA grid

This paper describes the coordination, design and implementation of the PRAGMA Grid. Applications in genomics, quantum mechanics, climate simulation, organic chemistry and molecular simulation have driven the middleware requirements, and the PRAGMA Grid provides a mechanism for science and technology teams to collaborate, for grids to interoperate and for international users to share software beyond the essential, de facto standard Globus core. Several middleware tools developed by researchers within PRAGMA have been deployed in the PRAGMA grid and this has enabled significant insights, improvements and new collaborations to flourish. In this paper, we describe how human factors, resource availability and performance issues have affected the middleware, applications and the grid design. We also describe how middleware components in grid monitoring, grid accounting and grid file systems have dealt with some of the major characteristics of our grid. We also briefly describe a number of mechanisms that we have employed to make software easily available to PRAGMA and global grid communities

A Standards Organization for Open and FAIR Neuroscience: the International Neuroinformatics Coordinating Facility

Abstract There is great need for coordination around standards and best practices in neuroscience to support efforts to make neuroscience a data-centric discipline. Major brain initiatives launched around the world are poised to generate huge stores of neuroscience data. At the same time, neuroscience, like many domains in biomedicine, is confronting the issues of transparency, rigor, and reproducibility. Widely used, validated standards and best practices are key to addressing the challenges in both big and small data science, as they are essential for integrating diverse data and for developing a robust, effective, and sustainable infrastructure to support open and reproducible neuroscience. However, developing community standards and gaining their adoption is difficult. The current landscape is characterized both by a lack of robust, validated standards and a plethora of overlapping, underdeveloped, untested and underutilized standards and best practices. The International Neuroinformatics Coordinating Facility (INCF), an independent organization dedicated to promoting data sharing through the coordination of infrastructure and standards, has recently implemented a formal procedure for evaluating and endorsing community standards and best practices in support of the FAIR principles. By formally serving as a standards organization dedicated to open and FAIR neuroscience, INCF helps evaluate, promulgate, and coordinate standards and best practices across neuroscience. Here, we provide an overview of the process and discuss how neuroscience can benefit from having a dedicated standards body

List of test case proteins extracted from the Protein PDB.

<p>Details about respective datasets are also listed.</p