Literature DB >> 33616035

Accelerating with FlyBrainLab the discovery of the functional logic of the Drosophila brain in the connectomic and synaptomic era.

Aurel A Lazar1, Tingkai Liu1, Mehmet Kerem Turkcan1, Yiyin Zhou1.   

Abstract

In recent years, a wealth of Drosophila neuroscience data have become available including cell type and connectome/synaptome datasets for both the larva and adult fly. To facilitate integration across data modalities and to accelerate the understanding of the functional logic of the fruit fly brain, we have developed FlyBrainLab, a unique open-source computing platform that integrates 3D exploration and visualization of diverse datasets with interactive exploration of the functional logic of modeled executable brain circuits. FlyBrainLab's User Interface, Utilities Libraries and Circuit Libraries bring together neuroanatomical, neurogenetic and electrophysiological datasets with computational models of different researchers for validation and comparison within the same platform. Seeking to transcend the limitations of the connectome/synaptome, FlyBrainLab also provides libraries for molecular transduction arising in sensory coding in vision/olfaction. Together with sensory neuron activity data, these libraries serve as entry points for the exploration, analysis, comparison, and evaluation of circuit functions of the fruit fly brain.
© 2021, Lazar et al.

Entities:  

Keywords:  D. melanogaster; connectomics; executable circuits; interactive computing; neuroscience; open source; synaptomics

Mesh:

Year:  2021        PMID: 33616035      PMCID: PMC8016480          DOI: 10.7554/eLife.62362

Source DB:  PubMed          Journal:  Elife        ISSN: 2050-084X            Impact factor:   8.140


  67 in total

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Authors:  Padraig Gleeson; Sharon Crook; Robert C Cannon; Michael L Hines; Guy O Billings; Matteo Farinella; Thomas M Morse; Andrew P Davison; Subhasis Ray; Upinder S Bhalla; Simon R Barnes; Yoana D Dimitrova; R Angus Silver
Journal:  PLoS Comput Biol       Date:  2010-06-17       Impact factor: 4.475

5.  The connectome of the adult Drosophila mushroom body provides insights into function.

Authors:  Feng Li; Jack W Lindsey; Elizabeth C Marin; Nils Otto; Marisa Dreher; Georgia Dempsey; Ildiko Stark; Alexander S Bates; Markus William Pleijzier; Philipp Schlegel; Aljoscha Nern; Shin-Ya Takemura; Nils Eckstein; Tansy Yang; Audrey Francis; Amalia Braun; Ruchi Parekh; Marta Costa; Louis K Scheffer; Yoshinori Aso; Gregory Sxe Jefferis; Larry F Abbott; Ashok Litwin-Kumar; Scott Waddell; Gerald M Rubin
Journal:  Elife       Date:  2020-12-14       Impact factor: 8.140

6.  A GAL4-driver line resource for Drosophila neurobiology.

Authors:  Arnim Jenett; Gerald M Rubin; Teri-T B Ngo; David Shepherd; Christine Murphy; Heather Dionne; Barret D Pfeiffer; Amanda Cavallaro; Donald Hall; Jennifer Jeter; Nirmala Iyer; Dona Fetter; Joanna H Hausenfluck; Hanchuan Peng; Eric T Trautman; Robert R Svirskas; Eugene W Myers; Zbigniew R Iwinski; Yoshinori Aso; Gina M DePasquale; Adrianne Enos; Phuson Hulamm; Shing Chun Benny Lam; Hsing-Hsi Li; Todd R Laverty; Fuhui Long; Lei Qu; Sean D Murphy; Konrad Rokicki; Todd Safford; Kshiti Shaw; Julie H Simpson; Allison Sowell; Susana Tae; Yang Yu; Christopher T Zugates
Journal:  Cell Rep       Date:  2012-10-11       Impact factor: 9.423

7.  The comprehensive connectome of a neural substrate for 'ON' motion detection in Drosophila.

Authors:  Shin-Ya Takemura; Aljoscha Nern; Dmitri B Chklovskii; Louis K Scheffer; Gerald M Rubin; Ian A Meinertzhagen
Journal:  Elife       Date:  2017-04-22       Impact factor: 8.140

8.  Geppetto: a reusable modular open platform for exploring neuroscience data and models.

Authors:  Matteo Cantarelli; Boris Marin; Adrian Quintana; Matt Earnshaw; Robert Court; Padraig Gleeson; Salvador Dura-Bernal; R Angus Silver; Giovanni Idili
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2018-09-10       Impact factor: 6.237

9.  A resource for the Drosophila antennal lobe provided by the connectome of glomerulus VA1v.

Authors:  Jane Anne Horne; Carlie Langille; Sari McLin; Meagan Wiederman; Zhiyuan Lu; C Shan Xu; Stephen M Plaza; Louis K Scheffer; Harald F Hess; Ian A Meinertzhagen
Journal:  Elife       Date:  2018-11-01       Impact factor: 8.140

10.  The SONATA data format for efficient description of large-scale network models.

Authors:  Kael Dai; Juan Hernando; Yazan N Billeh; Sergey L Gratiy; Judit Planas; Andrew P Davison; Salvador Dura-Bernal; Padraig Gleeson; Adrien Devresse; Benjamin K Dichter; Michael Gevaert; James G King; Werner A H Van Geit; Arseny V Povolotsky; Eilif Muller; Jean-Denis Courcol; Anton Arkhipov
Journal:  PLoS Comput Biol       Date:  2020-02-24       Impact factor: 4.475

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  4 in total

1.  A Programmable Ontology Encompassing the Functional Logic of the Drosophila Brain.

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Journal:  Front Neuroinform       Date:  2022-06-20       Impact factor: 3.739

2.  neuPrint: An open access tool for EM connectomics.

Authors:  Stephen M Plaza; Jody Clements; Tom Dolafi; Lowell Umayam; Nicole N Neubarth; Louis K Scheffer; Stuart Berg
Journal:  Front Neuroinform       Date:  2022-07-20       Impact factor: 3.739

3.  Connectomic analysis of the Drosophila lateral neuron clock cells reveals the synaptic basis of functional pacemaker classes.

Authors:  Orie T Shafer; Gabrielle J Gutierrez; Kimberly Li; Amber Mildenhall; Daphna Spira; Jonathan Marty; Aurel A Lazar; Maria de la Paz Fernandez
Journal:  Elife       Date:  2022-06-29       Impact factor: 8.713

Review 4.  Open Frontiers in Neural Cell Type Investigations; Lessons From Caenorhabditis elegans and Beyond, Toward a Multimodal Integration.

Authors:  Georgia Rapti
Journal:  Front Neurosci       Date:  2022-03-07       Impact factor: 4.677

  4 in total

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