Skip to main content
bioRxiv
  • Home
  • About
  • Submit
  • ALERTS / RSS
Advanced Search
New Results

The Fruit Fly Brain Observatory: From Structure to Function

Nikul H. Ukani, Chung-Heng Yeh, Adam Tomkins, Yiyin Zhou, Dorian Florescu, Carlos Luna Ortiz, Yu-Chi Huang, Cheng-Te Wang, Mehmet K. Turkcan, Tingkai Liu, Paul Richmond, Chung-Chuan Lo, Daniel Coca, Ann-Shyn Chiang, Aurel A. Lazar
doi: https://doi.org/10.1101/580290
Nikul H. Ukani
1Department of Electrical Engineering, Columbia University, New York, NY 10027, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Chung-Heng Yeh
1Department of Electrical Engineering, Columbia University, New York, NY 10027, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Adam Tomkins
2Department of Automatic Control & Systems Engineering, The University of Sheffield, Sheffield, S1 3JD, UK
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Yiyin Zhou
1Department of Electrical Engineering, Columbia University, New York, NY 10027, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Dorian Florescu
2Department of Automatic Control & Systems Engineering, The University of Sheffield, Sheffield, S1 3JD, UK
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Carlos Luna Ortiz
2Department of Automatic Control & Systems Engineering, The University of Sheffield, Sheffield, S1 3JD, UK
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Yu-Chi Huang
3Brain Research Center, National Tsing Hua University, Hsinchu 30013, Taiwan
4Institute of Systems Neuroscience, National Tsing Hua University, Hsinchu 30013, Taiwan
5Department of Life Science, National Tsing Hua University, Hsinchu 30013, Taiwan
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Cheng-Te Wang
3Brain Research Center, National Tsing Hua University, Hsinchu 30013, Taiwan
4Institute of Systems Neuroscience, National Tsing Hua University, Hsinchu 30013, Taiwan
5Department of Life Science, National Tsing Hua University, Hsinchu 30013, Taiwan
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Mehmet K. Turkcan
1Department of Electrical Engineering, Columbia University, New York, NY 10027, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Tingkai Liu
1Department of Electrical Engineering, Columbia University, New York, NY 10027, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Paul Richmond
6Department of Computer Science, The University of Sheffield, Sheffield, S1 4DP, UK
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Chung-Chuan Lo
3Brain Research Center, National Tsing Hua University, Hsinchu 30013, Taiwan
4Institute of Systems Neuroscience, National Tsing Hua University, Hsinchu 30013, Taiwan
5Department of Life Science, National Tsing Hua University, Hsinchu 30013, Taiwan
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Daniel Coca
2Department of Automatic Control & Systems Engineering, The University of Sheffield, Sheffield, S1 3JD, UK
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Ann-Shyn Chiang
3Brain Research Center, National Tsing Hua University, Hsinchu 30013, Taiwan
5Department of Life Science, National Tsing Hua University, Hsinchu 30013, Taiwan
7Genomics Research Center, Academia Sinica, Nankang, Taipei 11529, Taiwan
8Institute of Physics, Academia Sinica, Nankang, Taipei 11529, Taiwan
9Department of Biomedical Science and Environmental Biology, Kaohsiung Medical University, Kaohsiung 80708, Taiwan
10Kavli Institute for Brain and Mind, University of California, San Diego, La Jolla, California 92093, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Aurel A. Lazar
1Department of Electrical Engineering, Columbia University, New York, NY 10027, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • For correspondence: aurel@ee.columbia.edu
  • Abstract
  • Full Text
  • Info/History
  • Metrics
  • Supplementary material
  • Preview PDF
Loading

Abstract

The fruit fly is a key model organism for studying the activity of interconnected brain circuits. A large scattered global research community of neurobiologists and neurogeneticists, computational and theoretical neuroscientists, and computer scientists and engineers has been developing a vast trove of experimental and modeling data that has yet to be distilled into new knowledge and understanding of the functional logic of the brain. Developing open shared models, modelling tools and data repositories that can be accessed from anywhere in the world is the necessary engine for accelerating our understanding of how the brain works.

To that end we developed the Fruit Fly Brain Observatory (FFBO), the next generation open-source platform to support open, collaborative Drosophila neuroscience research. FFBO provides a (i) hub for storing and integrating fruit fly brain research data from multiple data sources worldwide, (ii) unified repository of tools and methods to build, emulate and compare fruit fly brain models in health and disease, and (iii) an open framework for fruit fly brain data processing and model execution. FFBO provides access to application tools for visualizing, configuring, simulating and analyzing computational models of brain circuits of the (i) cell type map, (ii) connectome, (iii) synaptome, and (iv) activity map using intuitive queries in plain English. Tools are provided to extract the function inherent in these structural maps. All applications can be accessed with any modern browser.

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. All rights reserved. No reuse allowed without permission.
Back to top
PreviousNext
Posted March 18, 2019.
Download PDF

Supplementary Material

Email

Thank you for your interest in spreading the word about bioRxiv.

NOTE: Your email address is requested solely to identify you as the sender of this article.

Enter multiple addresses on separate lines or separate them with commas.
The Fruit Fly Brain Observatory: From Structure to Function
(Your Name) has forwarded a page to you from bioRxiv
(Your Name) thought you would like to see this page from the bioRxiv website.
CAPTCHA
This question is for testing whether or not you are a human visitor and to prevent automated spam submissions.
Share
The Fruit Fly Brain Observatory: From Structure to Function
Nikul H. Ukani, Chung-Heng Yeh, Adam Tomkins, Yiyin Zhou, Dorian Florescu, Carlos Luna Ortiz, Yu-Chi Huang, Cheng-Te Wang, Mehmet K. Turkcan, Tingkai Liu, Paul Richmond, Chung-Chuan Lo, Daniel Coca, Ann-Shyn Chiang, Aurel A. Lazar
bioRxiv 580290; doi: https://doi.org/10.1101/580290
Reddit logo Twitter logo Facebook logo LinkedIn logo Mendeley logo
Citation Tools
The Fruit Fly Brain Observatory: From Structure to Function
Nikul H. Ukani, Chung-Heng Yeh, Adam Tomkins, Yiyin Zhou, Dorian Florescu, Carlos Luna Ortiz, Yu-Chi Huang, Cheng-Te Wang, Mehmet K. Turkcan, Tingkai Liu, Paul Richmond, Chung-Chuan Lo, Daniel Coca, Ann-Shyn Chiang, Aurel A. Lazar
bioRxiv 580290; doi: https://doi.org/10.1101/580290

Citation Manager Formats

  • BibTeX
  • Bookends
  • EasyBib
  • EndNote (tagged)
  • EndNote 8 (xml)
  • Medlars
  • Mendeley
  • Papers
  • RefWorks Tagged
  • Ref Manager
  • RIS
  • Zotero
  • Tweet Widget
  • Facebook Like
  • Google Plus One

Subject Area

  • Neuroscience
Subject Areas
All Articles
  • Animal Behavior and Cognition (4684)
  • Biochemistry (10361)
  • Bioengineering (7675)
  • Bioinformatics (26337)
  • Biophysics (13529)
  • Cancer Biology (10686)
  • Cell Biology (15440)
  • Clinical Trials (138)
  • Developmental Biology (8497)
  • Ecology (12821)
  • Epidemiology (2067)
  • Evolutionary Biology (16862)
  • Genetics (11399)
  • Genomics (15478)
  • Immunology (10617)
  • Microbiology (25219)
  • Molecular Biology (10223)
  • Neuroscience (54473)
  • Paleontology (401)
  • Pathology (1668)
  • Pharmacology and Toxicology (2897)
  • Physiology (4342)
  • Plant Biology (9247)
  • Scientific Communication and Education (1586)
  • Synthetic Biology (2558)
  • Systems Biology (6781)
  • Zoology (1466)