Evidence map›Paper›PMID 38729112›Full record

ArticleCell2024

Neurotransmitter classification from electron microscopy images at synaptic sites in Drosophila melanogaster.

Nils Eckstein, Alexander Shakeel Bates, Andrew Champion, Michelle Du, Yijie Yin, Philipp Schlegel, Alicia Kun-Yang Lu, Thomson Rymer, Samantha Finley-May, Tyler Paterson and 13 more

Abstract read
In one paragraph

Article in Cell, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 146 papers.

0numbers the graph read from it
0cells of the map it votes in
146citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

146 citing papers in PubMed.

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86 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

23 authors.

Nils EcksteinHHMI Janelia Research Campus, Ashburn, VA, USA; Institute of Neuroinformatics UZH/ETHZ, Zurich, Switzerland.
Alexander Shakeel BatesNeurobiology Division, MRC Laboratory of Molecular Biology, Cambridge, UK; Centre for Neural Circuits and Behaviour, The University of Oxford, Tinsley Building, Mansfield Road, Oxford OX1 3SR, UK; Department of Neurobiology and Howard Hughes Medical Institute, Harvard Medical School, Boston, MA, USA.
Andrew ChampionDrosophila Connectomics Group, Department of Zoology, University of Cambridge, Cambridge, UK.
Michelle DuHHMI Janelia Research Campus, Ashburn, VA, USA.
Yijie YinDrosophila Connectomics Group, Department of Zoology, University of Cambridge, Cambridge, UK.
Philipp SchlegelNeurobiology Division, MRC Laboratory of Molecular Biology, Cambridge, UK; Drosophila Connectomics Group, Department of Zoology, University of Cambridge, Cambridge, UK.
Alicia Kun-Yang LuHHMI Janelia Research Campus, Ashburn, VA, USA.
Thomson RymerHHMI Janelia Research Campus, Ashburn, VA, USA.
Samantha Finley-MayHHMI Janelia Research Campus, Ashburn, VA, USA.
Tyler PatersonHHMI Janelia Research Campus, Ashburn, VA, USA.
Ruchi ParekhHHMI Janelia Research Campus, Ashburn, VA, USA.
Sven DorkenwaldPrinceton Neuroscience Institute, Princeton University, Princeton, NJ, USA.
Arie MatsliahPrinceton Neuroscience Institute, Princeton University, Princeton, NJ, USA.
Szi-Chieh YuPrinceton Neuroscience Institute, Princeton University, Princeton, NJ, USA.
Claire McKellarPrinceton Neuroscience Institute, Princeton University, Princeton, NJ, USA.
Amy SterlingPrinceton Neuroscience Institute, Princeton University, Princeton, NJ, USA.
Katharina EichlerDrosophila Connectomics Group, Department of Zoology, University of Cambridge, Cambridge, UK.
Marta CostaDrosophila Connectomics Group, Department of Zoology, University of Cambridge, Cambridge, UK.
Sebastian SeungPrinceton Neuroscience Institute, Princeton University, Princeton, NJ, USA.
Mala MurthyPrinceton Neuroscience Institute, Princeton University, Princeton, NJ, USA.
Volker HartensteinDepartment of Molecular Cell and Developmental Biology, University of California, Los Angeles, Los Angeles, CA, USA.
Gregory S X E JefferisNeurobiology Division, MRC Laboratory of Molecular Biology, Cambridge, UK; Drosophila Connectomics Group, Department of Zoology, University of Cambridge, Cambridge, UK. Electronic address: jefferis@mrc-lmb.cam.ac.uk.
Jan FunkeHHMI Janelia Research Campus, Ashburn, VA, USA. Electronic address: funkej@janelia.hhmi.org.

Funding

Lineage-associated wiring properties of Drosphila brain neuronsR01NS054814 · NINDS · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI HARTENSTEIN, VOLKER, LOUIS, MATTHIEU R. P. J. C. G. · 2006 to 2025
$6.6M
Uncovering the Neural Mechanisms that Flexibly Link Sensory Processing to BehaviorR35NS111580 · NINDS · PRINCETON UNIVERSITY · PI Mala Murthy · 2019 to 2026
$5.0M
Crowdsourcing the Fly ConnectomeRF1MH117815 · NIMH · PRINCETON UNIVERSITY · PI MURTHY, MALA, SEUNG, HYUNJUNE SEBASTIAN · 2018 to 2018
$3.3M
Accelerating connectomic proofreading for larger brains and multiple individualsRF1MH129268 · NIMH · PRINCETON UNIVERSITY · PI MURTHY, MALA · 2022 to 2022
$2.1M
Automating whole brain connectomics: development, validation, and application of an open toolkitRF1MH120679 · NIMH · UNIVERSITY OF VERMONT & ST AGRIC COLLEGE · PI BOCK, DAVI · 2019 to 2019
$1.9M
NIMH NIH HHS RF1 MH117815NIMH NIH HHS RF1 MH120679NIMH NIH HHS RF1 MH129268NINDS NIH HHS R01 NS054814NINDS NIH HHS R35 NS111580Wellcome Trust
6 · The paper itself

Abstract

High-resolution electron microscopy of nervous systems has enabled the reconstruction of synaptic connectomes. However, we do not know the synaptic sign for each connection (i.e., whether a connection is excitatory or inhibitory), which is implied by the released transmitter. We demonstrate that artificial neural networks can predict transmitter types for presynapses from electron micrographs: a network trained to predict six transmitters (acetylcholine, glutamate, GABA, serotonin, dopamine, octopamine) achieves an accuracy of 87% for individual synapses, 94% for neurons, and 91% for known cell types across a D. melanogaster whole brain. We visualize the ultrastructural features used for prediction, discovering subtle but significant differences between transmitter phenotypes. We also analyze transmitter distributions across the brain and find that neurons that develop together largely express only one fast-acting transmitter (acetylcholine, glutamate, or GABA). We hope that our publicly available predictions act as an accelerant for neuroscientific hypothesis generation for the fly.

Indexed as

Drosophila melanogasterMicroscopy, ElectronNeurotransmitter AgentsSynapsesAnimalsBrainConnectomegamma-Aminobutyric AcidNeural Networks, ComputerNeuronsgamma-Aminobutyric AcidNeurotransmitter Agentsneuroscience, machine learning, electron microscopy, Drosophila melanogaster, neurotransmitter, explainable AI

Identifiers

PMID38729112
PMCPMC11106717

What OpenQuestion holds

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LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.