KESMBA: Knife-Edge Scanning Microscope Brain Atlas

Brain Networks Laboratory     •     Department of Computer Science and Engineering     •     Texas A&M University

Knife-Edge Scanning Microscope Brain Atlas

The KESM Brain Atlas (KESMBA) is a web-based, light-weight 3D volume viewer that serves large volumes (typically the whole brain) of high-resolution mouse brain images (~1.5 TB per brain, ~1 um resolution) from the Knife-Edge Scanning Microscope (KESM), invented by Bruce H. McCormick. [More ...]  [Browse the tutorial]  [Detailed atlas info]

Atlas 1: Golgi 1
Atlas 2: Golgi 2
Atlas 3: India ink

Acquired in 2008 Acquired in 2010 Acquired in 2008
Choe et al. (2009) Chung et al. (2011) Choe et al. (2009)

[More info on the atlases ...]

Knife-Edge Scanning Microscope Brain Atlas [Go to the new Atlas]

The enhanced KESM Brain Atlas 2.0 is now available! The new version serves the same data, but it has the following features:

  1. New data set: Full Golgi data set (Golgi 2) and array tomography data
  2. Coronal, Sagittal, and Horizontal views: (Golgi and Golgi 2)
  3. Registration to Allen Brain Atlas (India ink data and Nissl data only)
  4. Experimental: Array Tomography Data with molecular label overlay.
  5. SVG-based tiles: faster to load
  6. Go to the new atlas:

Knife-Edge Scanning Microscope

The data for KESMBA are acquired using the Knife-Edge Scanning Microscope (Mayerich et al. 2008) shown below. The KESM was invented by Bruce H. McCormick: US patent (2004)

Simultaneous cutting and (line-scan) imaging is the key principle behind the KESM and KESM is the first such instrument to achieve whole mouse brain imaging using the principle Choe et al., Society for Neuroscience Abstract (2009).

[See the movies]

For more information about the KESM, see the KESM tech spec page.

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