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Home • PSC_final • Reconstruction Information
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Reconstruction Information
Microscopy product ID: 8448
Image basename: PSC_final

Reconstruction description
Reconstruction description Some of the original section series was discarded during reconstruction. Authors note that the range of section thicknesses varied from 40 nm to 50 nm (0.050 um). An average value of 45 nm (0.045 um) was chosen.

The reconstruction is also available at: http://openconnectomeproject.org/Bock11/

Full-resolution reconstruction file Downsampled version (1/8 resolution) of a 10 Tb serial section reconstruction of mouse primary visual cortex available as a series of TIFF files. Each file is an assembled mosaic of a single thin section. A 2K X 2K full resolution core is also available for download under the "downsampled downloadable file" link. Note: The full 10 TB data set is available but may not be downloaded via the CCDB. If you are interested in accessing these data, please contact webmaster@ccdb.ucsd.edu Voxel dimensions given above for reconstruction represent values for the downsampled reconstruction. The original voxel dimensions are available under Image 2D or Microscopy Product tables. Authors note that the range of section thicknesses varied from 40 nm to 50 nm. An average value of 45 nm (0.045 um) was chosen here.
Down-sampled version of the reconstruction file Cropped version (2048 X 2048) of central core of serial electron micrograph series at full resolution (4 nm sampling) through layers 1-4 of the primary visual cortex of the adult mouse. Some of the 2k x 2k images are pure black. This is not a mistake; they are 'bookkeeping' sections, to maintain numbering alignment with the 1/8th resolution stack. If you look at the equivalent 1/8th section you will see that these are sections that have information outside the field of view of the 2k x 2k image. (These are 'coming in' sections. They occur after pickup of a series of sections, when the ultramicrotome is restarted and only grazes a portion of the sample block face for a few sections.) Note that the voxel dimensions of the cropped version are 0.004 um X 0.004 um X 0.045 um.
Image map file  
Reconstruction file format TIFF
Volume dimension (16900.0, 14950.0, 1153.0) pixels
Voxel scale (0.032, 0.032, 0.045) µm
More details
Animation
Animation through the central core of serial electron micrograph series at full resolution (4 nm sampling) through layers 1-4 of the primary visual cortex of the adult mouse. Black images represent 'bookkeeping' sections inserted to maintain numbering alignment with the 1/8th resolution stack. The cropped full resolution volume used to create this animation is available for download through the "downsampled downloadable data file" link.
Data files
Action File type File size Description
Download 512x512 image Unknown Serial electron micrograph series through layers 1-4 of the primary visual cortex of the adult mouse. Reconstruction encompasses 450 X 350 X 52 um volume of tissue and contains ~ 1500 cell bodies. This same area of tissue was functionally characterized for orientation and direction selectivity using two photon calcium imaging.

The reconstruction is also available at: http://openconnectomeproject.org/Bock11/
Download Reconstruction data file 270.92GB Downsampled version (1/8 resolution) of a 10 Tb serial section reconstruction of mouse primary visual cortex available as a series of TIFF files. Each file is an assembled mosaic of a single thin section. A 2K X 2K full resolution core is also available for download under the "downsampled downloadable file" link. Note: The full 10 TB data set is available but may not be downloaded via the CCDB. If you are interested in accessing these data, please contact webmaster@ccdb.ucsd.edu Voxel dimensions given above for reconstruction represent values for the downsampled reconstruction. The original voxel dimensions are available under Image 2D or Microscopy Product tables. Authors note that the range of section thicknesses varied from 40 nm to 50 nm. An average value of 45 nm (0.045 um) was chosen here.
Download Downsampled data file 4.83GB Cropped version (2048 X 2048) of central core of serial electron micrograph series at full resolution (4 nm sampling) through layers 1-4 of the primary visual cortex of the adult mouse. Some of the 2k x 2k images are pure black. This is not a mistake; they are 'bookkeeping' sections, to maintain numbering alignment with the 1/8th resolution stack. If you look at the equivalent 1/8th section you will see that these are sections that have information outside the field of view of the 2k x 2k image. (These are 'coming in' sections. They occur after pickup of a series of sections, when the ultramicrotome is restarted and only grazes a portion of the sample block face for a few sections.) Note that the voxel dimensions of the cropped version are 0.004 um X 0.004 um X 0.045 um.
Download Animation video 355.63MB Animation through the central core of serial electron micrograph series at full resolution (4 nm sampling) through layers 1-4 of the primary visual cortex of the adult mouse. Black images represent 'bookkeeping' sections inserted to maintain numbering alignment with the 1/8th resolution stack. The cropped full resolution volume used to create this animation is available for download through the "downsampled downloadable data file" link.

Description: Serial electron micrograph series through layers 1-4 of the primary visual cortex of the adult mouse. Reconstruction encompasses 450 X 350 X 52 um volume of tissue and contains ~ 1500 cell bodies. This same area of tissue was functionally characterized for orientation and direction selectivity using two photon calcium imaging.

The reconstruction is also available at: http://openconnectomeproject.org/Bock11/

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Description: Serial electron micrograph series through layers 1-4 of the primary visual cortex of the adult mouse. Reconstruction encompasses 450 X 350 X 52 um volume of tissue and contains ~ 1500 cell bodies. This same area of tissue was functionally characterized for orientation and direction selectivity using two photon calcium imaging.

The reconstruction is also available at: http://openconnectomeproject.org/Bock11/

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