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A three-dimensional thalamocortical dataset for characterizing brain heterogeneity: Region of Interest Annotations (Nrrd)

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posted on 2020-04-20, 00:13 authored by Judy PrasadJudy Prasad, Aishwarya BalwaniAishwarya Balwani, Erik JohnsonErik Johnson, Joseph MianoJoseph Miano, Vandana Sampathkumar, Vincent De Andrade, Kamel Fezzaa, Ming Du, Rafael Vescovi, Chris Jacobsen, Konrad Paul Kording, Doga Gursoy, William Gray Roncal, Narayanan Kasthuri, Eva DyerEva Dyer
In this dataset, we provide a collection of images acquired from multiple brain regions that span an intact thalamocortical pathway (Agmon & Connors, 1991). The data was acquired using synchrotron X-ray microCT at 1.17 micron isotropic resolution. Along with these images, we provide annotations of regions of interest for the same images. All of the images are stored as tiffs and the annotations are stored as Nrrd files which can be easily opened in Fiji or Python and converted to other formats. The annotated images are located 58.5 microns apart (virtual section) from one another. The labels are 0-> no label; 1-> cortex; 2-> striatum; 3-> trn; 4-> vp; 5-> zona incerta; 6-> internal capsule; 7-> hypothalamus; 8-> corpus callosum.

Funding

NSF IIS-1755871

NIH 1R24MH114799-01

Sloan Research Fellowship in Neuroscience

Argonne National Laboratory Contract No. DE-AC02-06CH11357

NIMH R24MH114785

NIMH U01 MH109100

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