BrainMaps.org is an interactive zoomable high-resolution digital brain atlas and virtual microscope that is based on more than 10 million megapixels of scanned images of serial sections of both primate and non-primate brains and that is integrated with a high-speed database for querying and retrieving data about brain structure and function over the internet. Currently featured are complete brain atlas datasets for various species, including Macaca mulatta, C. aethiops, Felis catus, and Mus musculus.On their website one can find a suite of desktop applications for interacting with and analyzing BrainMaps.org data. One of this applications (featured here) is Nodes3D, a 3D graph visualization program written by Issac Trotts in consultation with Shawn Mikula, in the labs of Edward G. Jones.