Dataset: Yim et al. 2024
Reconstruction of the directed chemical synaptic connectome of the dauer, a distinct developmental stage of C. elegans. Presynaptic active zones were detected by a convolutional neural network, reconstructed in 3D and proofread; postsynaptic partners and each partner's share of an active zone were assigned by simulating neurotransmitter diffusion. This connectome dataset contains normalized weights to ease comparison to other datasets.
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WhiteJSH WhiteN2U White_whole Varshney Bentley2016_MA Bentley2016_PEP Cook2019Herm Cook2019Male Cook2020 Brittin2021 Witvliet1 Witvliet2 Witvliet3 Witvliet4 Witvliet5 Witvliet6 Witvliet7 Witvliet8 WormNeuroAtlas Randi2023 RipollSanchezShortRange RipollSanchezMidRange RipollSanchezLongRange Yim2024 Yim2024NonNorm Yim2024Contactome Yim2024ContactomeNonNorm Wang2024Herm Wang2024Male OpenWormUnified Test SSData UpdSSData UpdSSData2 GleesonModel OlivaresModel
Dataset taken from Yim et al. 2024. Data extracted from 41467_2024_45943_MOESM6_ESM.xlsx, Yim et al. 2024 Dauer connectome (Synaptic connections; Normalized). Python Reader: Yim2024DataReader
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Raw Data - Neurons - Pharynx - Social Network - Escape Response Circuit - Cook 2019 Fig 3 - BrainMap A - BrainMap B - Locomotion 1 - Locomotion 2 - Locomotion 3 - Peptidergic Hubs - Nonpharyngeal Neurons (herm) - Sensory Neurons (somatic) - Motor Neurons (somatic) - Motor Neurons and muscles - Interneurons (somatic) -
Escape Response Circuit from Pirri & Alkema, 2013
Escape Response Circuit (Escape)
Escape Response Circuit from Pirri & Alkema, 2013
| Connection type | Total size | Values present | Nodes with pre connections | Nodes with post connections |
|---|---|---|---|---|
| Chemical | (15, 15) matrix | 30 non-zero entries 2 nodes with self-connections Avg. weight: 6.117924 Sum of weights: 183.5377332728831 |
ALM, AVB, AVM, PVC, RIM, RMD, SMD | ALM, AVA, AVB, AVD, AVM, Body Musc, Head Musc, PVC, RIM, RMD, SMD |
Weight definition: Weights are the summed volume (nm3) of active zone material attributed to a pre/post pair.. In this dataset, these are normalized by the standard deviation of connection weights without the top 5th percentile to remove the bias due to the big outliers
Validation tests: See here