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The SPARC DRC: Building a resource for the autonomic nervous system community

View ORCID ProfileMahyar Osanlouy, View ORCID ProfileAnita Bandrowski, View ORCID ProfileBernard de Bono, View ORCID ProfileDavid Brooks, Antonio M. Cassarà, View ORCID ProfileRichard Christie, View ORCID ProfileNazanin Ebrahimi, View ORCID ProfileTom Gillespie, View ORCID ProfileJeffrey S. Grethe, View ORCID ProfileLeonardo A. Guercio, View ORCID ProfileMaci Heal, View ORCID ProfileMabelle Lin, View ORCID ProfileNiels Kuster, View ORCID ProfileMaryann E. Martone, View ORCID ProfileEsra Neufeld, View ORCID ProfileDavid P. Nickerson, Elias G. Soltani, View ORCID ProfileSusan Tappan, View ORCID ProfileJoost B. Wagenaar, View ORCID ProfileKatie Zhuang, View ORCID ProfilePeter J. Hunter
doi: https://doi.org/10.1101/2021.04.01.438136
Mahyar Osanlouy
1Auckland Bioengineering Institute, University of Auckland, Auckland 1010, NZ
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  • For correspondence: m.osanlouy@auckland.ac.nz
Anita Bandrowski
2Department of Neuroscience, University of California, San Diego, CA 92093, USA
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  • ORCID record for Anita Bandrowski
Bernard de Bono
1Auckland Bioengineering Institute, University of Auckland, Auckland 1010, NZ
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David Brooks
1Auckland Bioengineering Institute, University of Auckland, Auckland 1010, NZ
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Antonio M. Cassarà
4IT’IS Foundation, Zeughausstrasse 43, 8004 Zurich, Switzerland
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Richard Christie
1Auckland Bioengineering Institute, University of Auckland, Auckland 1010, NZ
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Nazanin Ebrahimi
1Auckland Bioengineering Institute, University of Auckland, Auckland 1010, NZ
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Tom Gillespie
2Department of Neuroscience, University of California, San Diego, CA 92093, USA
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Jeffrey S. Grethe
2Department of Neuroscience, University of California, San Diego, CA 92093, USA
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  • ORCID record for Jeffrey S. Grethe
Leonardo A. Guercio
5Blackfynn, Inc., 1218 Chestnut Street, 8th Floor, Philadelphia, PA 19107, USA
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  • ORCID record for Leonardo A. Guercio
Maci Heal
3MBF Bioscience, 185 Allen Brook Lane, Suite 101, Williston, VT 05495 USA
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Mabelle Lin
1Auckland Bioengineering Institute, University of Auckland, Auckland 1010, NZ
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Niels Kuster
4IT’IS Foundation, Zeughausstrasse 43, 8004 Zurich, Switzerland
6Swiss Federal Institute of Technology (ETHZ), Zurich, Switzerland
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Maryann E. Martone
2Department of Neuroscience, University of California, San Diego, CA 92093, USA
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Esra Neufeld
4IT’IS Foundation, Zeughausstrasse 43, 8004 Zurich, Switzerland
6Swiss Federal Institute of Technology (ETHZ), Zurich, Switzerland
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David P. Nickerson
1Auckland Bioengineering Institute, University of Auckland, Auckland 1010, NZ
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Elias G. Soltani
1Auckland Bioengineering Institute, University of Auckland, Auckland 1010, NZ
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Susan Tappan
3MBF Bioscience, 185 Allen Brook Lane, Suite 101, Williston, VT 05495 USA
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  • ORCID record for Susan Tappan
Joost B. Wagenaar
5Blackfynn, Inc., 1218 Chestnut Street, 8th Floor, Philadelphia, PA 19107, USA
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Katie Zhuang
4IT’IS Foundation, Zeughausstrasse 43, 8004 Zurich, Switzerland
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Peter J. Hunter
1Auckland Bioengineering Institute, University of Auckland, Auckland 1010, NZ
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  • ORCID record for Peter J. Hunter
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ABSTRACT

The Data and Resource Center (DRC) of the NIH-funded SPARC program is developing databases, connectivity maps and simulation tools for the mammalian autonomic nervous system. The experimental data and mathematical models supplied to the DRC by the SPARC consortium are curated, annotated and semantically linked via a single knowledgebase. A data portal has been developed that allows discovery of data and models both via semantic search and via an interface that includes Google Map-like 2D flatmaps for displaying connectivity, and 3D anatomical organ scaffolds that provide a common coordinate framework for cross-species comparisons. We discuss examples that illustrate the data pipeline, which includes data upload, curation, segmentation (for image data), registration against the flatmaps and scaffolds, and finally display via the web portal, including the link to freely available online computational facilities that will enable neuromodulation hypotheses to be investigated by the autonomic neuroscience community and device manufacturers.

Competing Interest Statement

AB, MM and JG have equity interest in SciCrunch.com, a tech start up out of UCSD that develops tools and services for reproducible science, including support for RRIDs. AB is the CEO of SciCrunch.com. ST and MH are company employees of MBF Bioscience, a commercial entity. All other authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest.

Footnotes

  • ↵† Department of Biostatistics, Epidemiology and Informatics, University of Pennsylvania, Philadelphia, PA 19104, USA

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY 4.0 International license.
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Posted April 04, 2021.
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The SPARC DRC: Building a resource for the autonomic nervous system community
Mahyar Osanlouy, Anita Bandrowski, Bernard de Bono, David Brooks, Antonio M. Cassarà, Richard Christie, Nazanin Ebrahimi, Tom Gillespie, Jeffrey S. Grethe, Leonardo A. Guercio, Maci Heal, Mabelle Lin, Niels Kuster, Maryann E. Martone, Esra Neufeld, David P. Nickerson, Elias G. Soltani, Susan Tappan, Joost B. Wagenaar, Katie Zhuang, Peter J. Hunter
bioRxiv 2021.04.01.438136; doi: https://doi.org/10.1101/2021.04.01.438136
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The SPARC DRC: Building a resource for the autonomic nervous system community
Mahyar Osanlouy, Anita Bandrowski, Bernard de Bono, David Brooks, Antonio M. Cassarà, Richard Christie, Nazanin Ebrahimi, Tom Gillespie, Jeffrey S. Grethe, Leonardo A. Guercio, Maci Heal, Mabelle Lin, Niels Kuster, Maryann E. Martone, Esra Neufeld, David P. Nickerson, Elias G. Soltani, Susan Tappan, Joost B. Wagenaar, Katie Zhuang, Peter J. Hunter
bioRxiv 2021.04.01.438136; doi: https://doi.org/10.1101/2021.04.01.438136

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