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The Allen Mouse and Human Brain Atlases are projects within the Allen Institute for Brain Science which seek to combine genomics with neuroanatomy by creating gene expression maps for the mouse and human brain. They were initiated in September 2003 with a $100 million donation from Paul G. Allen and the first atlas went public in September 2006. As of May 2012, seven brain atlases have been published: Mouse Brain Atlas, Human Brain Atlas, Developing Mouse Brain Atlas, Developing Human Brain Atlas, Mouse Connectivity Atlas, Non-Human Primate Atlas, and Mouse Spinal Cord Atlas.

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BrainMaps is an NIH-funded interactive zoomable high-resolution digital brain atlas and virtual microscope that is based on more than 140 million megapixels (140 terabytes) 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 16 species; a few of which are: Macaca mulatta, Chlorocebus aethiops, Felis silvestris catus, Mus musculus, Rattus norvegicus, and Tyto alba.

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"BrainMap is a database of published functional and structural neuroimaging experiments with coordinate-based results (x,y,z) in Talairach or MNI space. The goal of BrainMap is to develop software and tools to share neuroimaging results and enable meta-analysis of studies of human brain function and structure in healthy and diseased subjects."

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"TheVirtualBrain is a framework for the simulation of the dynamics of large-scale brain networks with biologically realistic connectivity. TheVirtualBrain uses tractographic data (DTI/DSI) to generate connectivity matrices and build cortical and subcortical brain networks. The connectivity matrix defines the connection strengths and time delays via signal transmission between all network nodes. Various neural mass models are available in the repertoire of TheVirtualBrain and define the dynamics of a network node. Together, the neural mass models at the network nodes and the connectivity matrix define the Virtual Brain.

TheVirtualBrain simulates and generates the time courses of various forms of neural activity including Local Field Potentials (LFP) and firing rate, as well as brain imaging data such as EEG, MEG and BOLD activations as observed in fMRI.

TheVirtualBrain is foremost a scientific simulation platform and provides all means necessary to generate, manipulate and visualize connectivity and network dynamics. In addition, TheVirtualBrain comprises a set of classical time series analysis tools, structural and functional connectivity analysis tools, as well as parameter exploration facilities by launching parallel simulations on a cluster."

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The Neuroimaging Tools and Resources Collaboratory (NITRC) is a neuroimaging informatics knowledge environment for MR, PET/SPECT, CT, EEG/MEG, optical imaging, clinical neuroinformatics, imaging genomics, and computational neuroscience tools and resources.