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Virtual Fly Brain—An interactive atlas of the Drosophila nervous system
As a model organism, Drosophila is uniquely placed to contribute to our understanding of how brains control complex behavior. Not only does it have complex adaptive behaviors, but also a uniquely powerful genetic toolkit, increasingly complete dense connectomic maps of the central nervous system and...
Autores principales: | , , , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Frontiers Media S.A.
2023
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9908962/ https://www.ncbi.nlm.nih.gov/pubmed/36776967 http://dx.doi.org/10.3389/fphys.2023.1076533 |
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author | Court, Robert Costa, Marta Pilgrim, Clare Millburn, Gillian Holmes, Alex McLachlan, Alex Larkin, Aoife Matentzoglu, Nicolas Kir, Huseyin Parkinson, Helen Brown, Nicolas H. O’Kane, Cahir J. Armstrong, J. Douglas Jefferis, Gregory S. X. E. Osumi-Sutherland, David |
author_facet | Court, Robert Costa, Marta Pilgrim, Clare Millburn, Gillian Holmes, Alex McLachlan, Alex Larkin, Aoife Matentzoglu, Nicolas Kir, Huseyin Parkinson, Helen Brown, Nicolas H. O’Kane, Cahir J. Armstrong, J. Douglas Jefferis, Gregory S. X. E. Osumi-Sutherland, David |
author_sort | Court, Robert |
collection | PubMed |
description | As a model organism, Drosophila is uniquely placed to contribute to our understanding of how brains control complex behavior. Not only does it have complex adaptive behaviors, but also a uniquely powerful genetic toolkit, increasingly complete dense connectomic maps of the central nervous system and a rapidly growing set of transcriptomic profiles of cell types. But this also poses a challenge: Given the massive amounts of available data, how are researchers to Find, Access, Integrate and Reuse (FAIR) relevant data in order to develop an integrated anatomical and molecular picture of circuits, inform hypothesis generation, and find reagents for experiments to test these hypotheses? The Virtual Fly Brain (virtualflybrain.org) web application & API provide a solution to this problem, using FAIR principles to integrate 3D images of neurons and brain regions, connectomics, transcriptomics and reagent expression data covering the whole CNS in both larva and adult. Users can search for neurons, neuroanatomy and reagents by name, location, or connectivity, via text search, clicking on 3D images, search-by-image, and queries by type (e.g., dopaminergic neuron) or properties (e.g., synaptic input in the antennal lobe). Returned results include cross-registered 3D images that can be explored in linked 2D and 3D browsers or downloaded under open licenses, and extensive descriptions of cell types and regions curated from the literature. These solutions are potentially extensible to cover similar atlasing and data integration challenges in vertebrates. |
format | Online Article Text |
id | pubmed-9908962 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | Frontiers Media S.A. |
record_format | MEDLINE/PubMed |
spelling | pubmed-99089622023-02-10 Virtual Fly Brain—An interactive atlas of the Drosophila nervous system Court, Robert Costa, Marta Pilgrim, Clare Millburn, Gillian Holmes, Alex McLachlan, Alex Larkin, Aoife Matentzoglu, Nicolas Kir, Huseyin Parkinson, Helen Brown, Nicolas H. O’Kane, Cahir J. Armstrong, J. Douglas Jefferis, Gregory S. X. E. Osumi-Sutherland, David Front Physiol Physiology As a model organism, Drosophila is uniquely placed to contribute to our understanding of how brains control complex behavior. Not only does it have complex adaptive behaviors, but also a uniquely powerful genetic toolkit, increasingly complete dense connectomic maps of the central nervous system and a rapidly growing set of transcriptomic profiles of cell types. But this also poses a challenge: Given the massive amounts of available data, how are researchers to Find, Access, Integrate and Reuse (FAIR) relevant data in order to develop an integrated anatomical and molecular picture of circuits, inform hypothesis generation, and find reagents for experiments to test these hypotheses? The Virtual Fly Brain (virtualflybrain.org) web application & API provide a solution to this problem, using FAIR principles to integrate 3D images of neurons and brain regions, connectomics, transcriptomics and reagent expression data covering the whole CNS in both larva and adult. Users can search for neurons, neuroanatomy and reagents by name, location, or connectivity, via text search, clicking on 3D images, search-by-image, and queries by type (e.g., dopaminergic neuron) or properties (e.g., synaptic input in the antennal lobe). Returned results include cross-registered 3D images that can be explored in linked 2D and 3D browsers or downloaded under open licenses, and extensive descriptions of cell types and regions curated from the literature. These solutions are potentially extensible to cover similar atlasing and data integration challenges in vertebrates. Frontiers Media S.A. 2023-01-26 /pmc/articles/PMC9908962/ /pubmed/36776967 http://dx.doi.org/10.3389/fphys.2023.1076533 Text en Copyright © 2023 Court, Costa, Pilgrim, Millburn, Holmes, McLachlan, Larkin, Matentzoglu, Kir, Parkinson, Brown, O’Kane, Armstrong, Jefferis and Osumi-Sutherland. https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms. |
spellingShingle | Physiology Court, Robert Costa, Marta Pilgrim, Clare Millburn, Gillian Holmes, Alex McLachlan, Alex Larkin, Aoife Matentzoglu, Nicolas Kir, Huseyin Parkinson, Helen Brown, Nicolas H. O’Kane, Cahir J. Armstrong, J. Douglas Jefferis, Gregory S. X. E. Osumi-Sutherland, David Virtual Fly Brain—An interactive atlas of the Drosophila nervous system |
title | Virtual Fly Brain—An interactive atlas of the Drosophila nervous system |
title_full | Virtual Fly Brain—An interactive atlas of the Drosophila nervous system |
title_fullStr | Virtual Fly Brain—An interactive atlas of the Drosophila nervous system |
title_full_unstemmed | Virtual Fly Brain—An interactive atlas of the Drosophila nervous system |
title_short | Virtual Fly Brain—An interactive atlas of the Drosophila nervous system |
title_sort | virtual fly brain—an interactive atlas of the drosophila nervous system |
topic | Physiology |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9908962/ https://www.ncbi.nlm.nih.gov/pubmed/36776967 http://dx.doi.org/10.3389/fphys.2023.1076533 |
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