Dataset: OpenWormUnified
An OpenWorm unified reader combining multiple connectomes. NOTE: WORK IN PROGRESS! SUBJECT TO CHANGE WITHOUT NOTICE!
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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 OpenWorm_Unified. A reader combining neurotransmitter atlas values from Wang et al. 2024 (source: elife-95402-supp2-v1.xlsx) with basic anatomical connectivity information from Cook et al. 2019 Hermaphrodite connectome, and monoaminergic receptor expression information from Bentley et al. 2016. Python Reader: OpenWormUnifiedReader
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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 (head & sub lat.) - Motor Neurons and muscles - Interneurons (somatic) -
All head and sublateral hermaphrodite motor neurons
Motor Neurons (head & sub lat.) (MotorHeadSubLat)
All head and sublateral hermaphrodite motor neurons
| Connection type | Total size | Values present | Nodes with pre connections | Nodes with post connections |
|---|---|---|---|---|
| Chemical | (37, 37) matrix | 145 non-zero entries 3 nodes with self-connections Avg. weight: 8.075862 Sum of weights: 1171.0 |
RIVL, RIVR, RMDDL, RMDDR, RMDL, RMDR, RMDVL, RMDVR, RMED, RMEL, RMER, RMEV, RMHL, RMHR, SIADL, SIADR, SIAVL, SIAVR, SIBDL, SIBDR, SIBVL, SIBVR, SMBDL, SMBDR, SMBVL, SMBVR, SMDDL, SMDDR, SMDVL, SMDVR, URADL, URADR, URAVL, URAVR | RIVL, RIVR, RMDDL, RMDDR, RMDL, RMDR, RMDVL, RMDVR, RMED, RMEL, RMER, RMEV, RMHL, RMHR, SIADL, SIADR, SIAVL, SIAVR, SIBDL, SIBDR, SIBVL, SIBVR, SMBDL, SMBDR, SMBVL, SMBVR, SMDDL, SMDDR, SMDVL, SMDVR, URAVL |
| Electrical | (37, 37) matrix | 92 non-zero entries Matrix is symmetric with 46 unique pairs (total unique pair weight: 139.0) Avg. weight: 3.021739 Sum of weights: 278.0 |
RIVL, RIVR, RMDDL, RMDDR, RMDL, RMDR, RMDVL, RMDVR, RMED, RMEL, RMER, RMEV, RMHL, SIADL, SIADR, SIAVL, SIAVR, SIBDL, SIBDR, SIBVL, SIBVR, SMBDL, SMBDR, SMBVL, SMBVR, SMDDL, SMDDR, SMDVL, SMDVR | RIVL, RIVR, RMDDL, RMDDR, RMDL, RMDR, RMDVL, RMDVR, RMED, RMEL, RMER, RMEV, RMHL, SIADL, SIADR, SIAVL, SIAVR, SIBDL, SIBDR, SIBVL, SIBVR, SMBDL, SMBDR, SMBVL, SMBVR, SMDDL, SMDDR, SMDVL, SMDVR |
| Acetylcholine | (37, 37) matrix | 134 non-zero entries 1 nodes with self-connections Avg. weight: 6.500000 Sum of weights: 871.0 |
RIVL, RIVR, RMDDL, RMDDR, RMDL, RMDR, RMDVL, RMDVR, RMHL, RMHR, SIADL, SIADR, SIAVL, SIAVR, SIBDL, SIBDR, SIBVL, SIBVR, SMBDL, SMBDR, SMBVL, SMBVR, SMDDL, SMDDR, SMDVL, SMDVR, URADL, URADR, URAVL, URAVR | RIVL, RIVR, RMDDL, RMDDR, RMDL, RMDR, RMDVL, RMDVR, RMED, RMEL, RMER, RMEV, RMHL, RMHR, SIADL, SIADR, SIAVL, SIAVR, SIBDL, SIBDR, SIBVL, SIBVR, SMBDL, SMBDR, SMBVL, SMBVR, SMDDL, SMDDR, SMDVL, SMDVR, URAVL |
| GABA | (37, 37) matrix | 41 non-zero entries 2 nodes with self-connections Avg. weight: 7.317073 Sum of weights: 300.0 |
RMED, RMEL, RMER, RMEV, SMDDL, SMDDR, SMDVL, SMDVR | RIVL, RIVR, RMDDL, RMDDR, RMDL, RMDR, RMED, RMER, RMEV, RMHR, SIADL, SIADR, SIAVL, SIAVR, SIBDL, SIBDR, SIBVL, SIBVR, SMBDL, SMBDR, SMDDL, SMDDR, SMDVL, SMDVR |
| Nodes in current view (37 total) xxxxxxxxxxxxxxxxxxxxxxxxx |
Num cells in node (37 total) |
Num in this dataset (37 total) |
Cells in node |
|---|---|---|---|
| RIVL | 1 | 1 | RIVL |
| RIVR | 1 | 1 | RIVR |
| RMDDL | 1 | 1 | RMDDL |
| RMDDR | 1 | 1 | RMDDR |
| RMDL | 1 | 1 | RMDL |
| RMDR | 1 | 1 | RMDR |
| RMDVL | 1 | 1 | RMDVL |
| RMDVR | 1 | 1 | RMDVR |
| RMED | 1 | 1 | RMED |
| RMEL | 1 | 1 | RMEL |
| RMER | 1 | 1 | RMER |
| RMEV | 1 | 1 | RMEV |
| RMHL | 1 | 1 | RMHL |
| RMHR | 1 | 1 | RMHR |
| SABD | 1 | 1 | SABD |
| SABVL | 1 | 1 | SABVL |
| SABVR | 1 | 1 | SABVR |
| SIADL | 1 | 1 | SIADL |
| SIADR | 1 | 1 | SIADR |
| SIAVL | 1 | 1 | SIAVL |
| SIAVR | 1 | 1 | SIAVR |
| SIBDL | 1 | 1 | SIBDL |
| SIBDR | 1 | 1 | SIBDR |
| SIBVL | 1 | 1 | SIBVL |
| SIBVR | 1 | 1 | SIBVR |
| SMBDL | 1 | 1 | SMBDL |
| SMBDR | 1 | 1 | SMBDR |
| SMBVL | 1 | 1 | SMBVL |
| SMBVR | 1 | 1 | SMBVR |
| SMDDL | 1 | 1 | SMDDL |
| SMDDR | 1 | 1 | SMDDR |
| SMDVL | 1 | 1 | SMDVL |
| SMDVR | 1 | 1 | SMDVR |
| URADL | 1 | 1 | URADL |
| URADR | 1 | 1 | URADR |
| URAVL | 1 | 1 | URAVL |
| URAVR | 1 | 1 | URAVR |
Validation tests: See here