Highlights from the Era of Open Source Web-Based Tools

Kristin R Anderson; Julie A Harris; Lydia Ng; Pjotr Prins; Sara Memar; Bengt Ljungquist; Daniel Fürth; Robert W Williams; Giorgio A Ascoli; Dani Dumitriu

doi:10.1523/JNEUROSCI.1657-20.2020

Highlights from the Era of Open Source Web-Based Tools

J Neurosci. 2021 Feb 3;41(5):927-936. doi: 10.1523/JNEUROSCI.1657-20.2020. Epub 2021 Jan 20.

Authors

Kristin R Anderson^{1

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3

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5}, Julie A Harris⁶, Lydia Ng⁶, Pjotr Prins⁷, Sara Memar⁸, Bengt Ljungquist⁹, Daniel Fürth¹⁰, Robert W Williams⁷, Giorgio A Ascoli⁹, Dani Dumitriu^{11

2

3

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5}

Affiliations

¹ Departments of Pediatrics and Psychiatry, Columbia University, New York, New York 10032.
² Division of Developmental Psychobiology, New York State Psychiatric Institute, New York, New York 10032.
³ The Sackler Institute for Developmental Psychobiology, Columbia University, New York, New York 10032.
⁴ Columbia Population Research Center, Columbia University, New York, New York 10027.
⁵ Zuckerman Institute, Columbia University, New York, New York 10027.
⁶ Allen Institute for Brain Science, Seattle, Washington 98109.
⁷ Department of Genetics, Genomics and Informatics, Center for Integrative and Translational Genomics, University of Tennessee Health Science Center, Memphis, Tennessee 38163.
⁸ Robarts Research Institute, BrainsCAN, Schulich School of Medicine & Dentistry, Western University, London, Ontario N6A 3K7, Canada.
⁹ Center for Neural Informatics, Structures, and Plasticity, Krasnow Institute for Advanced Study; and Department of Bioengineering, Volgenau School of Engineering, George Mason University, Fairfax, Virginia 22030.
¹⁰ Cold Spring Harbor Laboratory, Cold Spring Harbor, New York 11724.
¹¹ Departments of Pediatrics and Psychiatry, Columbia University, New York, New York 10032 dani.dumitriu@columbia.edu.

Abstract

High digital connectivity and a focus on reproducibility are contributing to an open science revolution in neuroscience. Repositories and platforms have emerged across the whole spectrum of subdisciplines, paving the way for a paradigm shift in the way we share, analyze, and reuse vast amounts of data collected across many laboratories. Here, we describe how open access web-based tools are changing the landscape and culture of neuroscience, highlighting six free resources that span subdisciplines from behavior to whole-brain mapping, circuits, neurons, and gene variants.

Keywords: neuroscience; online repositories; open access; open science; open source; web-based tools.

Publication types

Research Support, N.I.H., Extramural
Research Support, Non-U.S. Gov't
Review

MeSH terms

Access to Information*
Animals
Brain / cytology
Brain / physiology*
Datasets as Topic / trends
Gene Regulatory Networks / physiology
Humans
Internet / trends*
Nerve Net / cytology
Nerve Net / physiology*
Neurons / physiology*

Abstract

Publication types

MeSH terms

Grants and funding