Brain Architecture Project – Filling the gaps in our knowledge of brain circuitry

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Connectivity Search Engine

55,000 full-text journal articles on two prototype systems for information extraction.

PUBLICATIONS/PREPRINTS

Banerjee S, Magee L, Wang D, Li X, Huo B-X, Jayakumar J, et al.(2020) Semantic segmentation of microscopic neuroanatomical data by combining topological priors with encoder–decoder deep networks. Nature Machine Intelligence 2020;2:585–94. [Link]
Muñoz-Castañeda R, Zingg B, Matho KS, Wang Q, Chen X, Foster NN, et al.(2020) Cellular Anatomy of the Mouse Primary Motor Cortex. bioRxiv 2020:2020.10.02.323154. [Link]
Wang D, Magee L, Huo B-X, Banerjee S, Li X, Jayakumar J, et al.(2020) Detection and skeletonization of single neurons and tracer injections using topological methods. arXiv:200402755 [Cs, Stat] 2020. [Link]
Tward D, Li X, Huo B, Lee B, Mitra P, Miller M. 3D Mapping of Serial Histology Sections with Anomalies Using a Novel Robust Deformable Registration Algorithm. Presented at the Cham. (2019)
Chen Y, McElvain LE, Tolpygo AS, Ferrante D, Friedman B, Mitra PP, et al.(2019) An active texture-based digital atlas enables automated mapping of structures and markers across brains. Nature Methods 2019;16:341–50. [Link]
Lin MK, Takahashi YS, Huo B-X, Hanada M, Nagashima J, Hata J, et al. (2018). A High-throughput Neurohistological Pipeline for Brain-Wide Mesoscale Connectivity Mapping of the Common Marmoset. bioRxiv 315804 [Link]

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The Brain Architecture Project is a collaborative effort aimed at creating an integrated resource containing knowledge about nervous system architecture in multiple species, with extensive whole-brain light microscopic data sets available for Mouse and Marmoset as well as for other species including Zebra Finch and Human.

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Mouse Wildtype Connectivity

Mouse Cell Types

Marmoset Connectivity

Other Species

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