Research publications organized by project. Each entry links to relevant pipeline stages, task types, and internal documentation.
Publications from the FlyWire collaborative reconstruction of the Drosophila adult brain (FAFB dataset). Our team contributes Ground Truth annotations for synapse detection and proofreading validation.
Nature, 2024
The first complete connectome of an adult brain, reconstructed from a female Drosophila melanogaster. Contains ~140,000 neurons and ~50 million synapses, enabling comprehensive circuit analysis across the entire central brain.
Nature Methods, 2022
Describes the FlyWire platform for collaborative proofreading, including the segmentation pipeline, proofreading interface, and methods for community coordination at scale.
MICCAI, 2018
Neural network approach for detecting synaptic clefts in anisotropic electron microscopy data. Ground Truth annotations from this work form the basis for synapse detection in FAFB.
Publications from the Brain and Nerve Cord (BANC) project reconstructing the complete adult Drosophila nervous system including VNC.
bioRxiv, 2024
Complete connectome of the adult Drosophila ventral nerve cord, enabling analysis of motor circuits and sensory integration. Includes comprehensive proofreading and synapse annotation.
Data Release, 2024
Public release of BANC segmentation, synapses, and annotations. Includes CAVE materialization tables and Neuroglancer state links for browsing.
Foundational methods papers for tools and techniques used in our annotation workflows.
Forrest Collman et al. (2021) — Versioned annotation system used for all CAVE-based projects
Google — WebGL viewer for volumetric data, used for browsing segmentation and annotations
scalable minds — Annotation platform used for skeleton tracing and Ground Truth tasks
Januszewski et al. (2018) — Segmentation method used for initial neuron reconstructions
Seung Lab — Python library for reading/writing volumetric data in cloud storage