Open Connectome

About
Data
Docs
Publications
People
Funding

About

Our goal is to work together with neuro experimentalists to discover fundamental principles governing the relationship between mind and brain, via building and deploying open source data-driven tools that run at scale

Data

All data are hosted in AWS on the Open NeuroData Registry https://registry.opendata.aws/open-neurodata

Allen Institute 2017

Adult Mouse Reference Atlas from the Allen Institute

Amunts et al. 2015

BigBrain is free, publicly available, and provides t...

Bhatla et al. 2015

Bloss et al. 2016

Structured Dendritic Inhibition Supports Branch-Sele...

Bloss et al. 2018

Single excitatory axons form clustered synapses onto...

Bock et al. 2011

Branch 2018

Adult generated neurons in aging M. musculus

Bumbarger et al. 2013

Collman et al. 2015

Conjugate electron microscopy and array tomography

Deisseroth et al. 2016

Twelve CLARITY mouse brains (5 wild type controls an...

Dyer et al. 2016

Harris et al. 2015

A resource from 3D electron microscopy of hippocampa...

Hildebrand et al. 2017

Multi-resolution serial-section electron microscopy ...

Kasthuri et al. 2015

Bobby Kasthuri, Ph.D. under the tutelage of Jeff Lic...

Lee et al. 2016

Electron Microscopy data used in a study of an excit...

Micheva et al. 2015

Multi-channel array tomography data which is barrel ...

Ohyama Et Al. 2015

Randlett et al. 2015

ZBrain. Light microscopy data

Takemura et al. 2013

The right part of the brain of a wild-type Oregon R ...

Templier 2019

MagC, magnetic collection of ultrathin sections for ...

Zbrain atlas with surface mesh of different regions

Publications

J. T. Vogelstein, E. Perlman, B. Falk, A. Baden, W. Gray Roncal, V. Chandrashekhar, F. Collman, S. Seshamani, J. L. Patsolic, K. Lillaney, M. Kazhdan, R. Hider, D. Pryor, J. Matelsky, T. Gion, P. Manavalan, B. Wester, M. Chevillet, E. T. Trautman, K. Khairy, E. Bridgeford, D. M. Kleissas, D. J. Tward, A. K. Crow, B. Hsueh, M. A. Wright, M. I. Miller, S. J. Smith, R. J. Vogelstein, K. Deisseroth, and R. Burns. A Community-Developed Open-Source Computational Ecosystem for Big Neuro Data. Nature Methods, (11)15:846–847, 2018.

D. Kleissas, R. Hider, D. Pryor, T. Gion, P. Manavalan, J. Matelsky, A. Baden, K. Lillaney, R. Burns, D. D’Angelo, W. Gray Roncal, and B. Wester. The Block Object Storage Service (bossDB): A Cloud-Native Approach for Petascale Neuroscience Discovery. bioRxiv, 2017.

J. T. Vogelstein, B. Mensh, M. Häusser, N. Spruston, A. C. Evans, K. Kording, K. Amunts, C. Ebell, J. Muller, M. Telefont, S. Hill, S. P. Koushika, C. Calì, P. A. Valdés-Sosa, P. B. Littlewood, C. Koch, S. Saalfeld, A. Kepecs, H. Peng, Y. O. Halchenko, G. Kiar, M. M. Poo, J. B. Poline, M. P. Milham, A. P. Schaffer, R. Gidron, H. Okano, V. D. Calhoun, M. Chun, D. M. Kleissas, R. J. Vogelstein, E. Perlman, R. Burns, R. Huganir, and M. I. Miller. To the Cloud! A Grassroots Proposal to Accelerate Brain Science Discovery. Neuron, (3)92:622–627, 2016.

R. Burns, J. T. Vogelstein, and A. S. Szalay. From cosmos to connectomes: The evolution of data-intensive science. Neuron, (6)83:1249–1252, 2014.

R. Burns, W. G. Roncal, D. Kleissas, K. Lillaney, P. Manavalan, E. Perlman, D. R. Berger, D. D. Bock, K. Chung, L. Grosenick, N. Kasthuri, N. C. Weiler, K. Deisseroth, M. Kazhdan, J. Lichtman, R. C. Reid, S. J. Smith, A. S. Szalay, J. T. Vogelstein, and R. J. Vogelstein. The Open Connectome Project Data Cluster: Scalable Analysis and Vision for High-Throughput Neuroscience. ACM International Conference Proceeding Series, 2013.