qsimeon/celegans_connectome_data

CITATION

Q. Simeon, L. Venâncio, M. A. Skuhersky, A. Nayebi, E. S. Boyden and G. R. Yang, "Scaling Properties for Artificial Neural Network Models of a Small Nervous System," SoutheastCon 2024, Atlanta, GA, USA, 2024, pp. 516-524, doi: 10.1109/SoutheastCon52093.2024.10500049.

This dataset includes graph-based representations of the connectome, with detailed information about neuron positions and synaptic connections, facilitating the development of models that combine structure and function. We are releasing these datasets as open-source resources on the HuggingFace platform to ensure broad accessibility to researchers in both neuroscience and machine learning. These tensor files are formatted as following with the relevant accessible attributes and methods:

graph_tensors = {
 "edge_index": graph.edge_index,
 "edge_attr": graph.edge_attr,
 "pos": graph.pos,
 "num_classes": num_classes,
 "x": graph.x,
 "y": graph.y,
 "node_type": node_type,
 "node_label": node_label,
 "n_id": n_id,
 "node_class": node_class,
}

Some important notes:

• The edge_index attribute contains directed edge connection information between node pairs
• The edge_attr attribute contains gap junction and chemical synapse weightage values aligned with the edge_index directed edges
• The pos attribute contains 3D location information for each neuron

EXAMPLE USAGE

Google Colab notebook example of loading one of the connectomes and a 2D visualization of said connectome.