Comparing the Expression of Genes Related to Serotonin (5-HT) in C57BL/6J Mice and Humans Based on Data Available at the Allen Mouse Brain Atlas and Allen Human Brain Atlas

Table 3

Internet databases and tools for exploring diverse neurobiological, genetic, cellular, and physiological data.

Resource (database-DB/Tool-T)	Web address	Purpose
Reference atlas	http://atlas.brain-map.org/	Interactive reference atlas for mice and humans
Anatomic Gene Expression Atlas – AGEA (DB/T)	http://www.brain-map.org/agea/	Atlas of genic expression that allows users to visualize the correlation of expression patterns between areas of interest
Brain Explorer 2 (H)	http://mouse.brain-map.org/static/brainexplorer	Open-access software for visualizing the structures and expression of all mouse, human, and neurodevelopment genes
Brain Architecture Knowledge Management System (BAMS) Ontological neuroanatomical (DB)	http://neuro.imm.dtu.dk/wiki/Brain_Architecture_Management_System	Development of a semantic framework for classifying types of neurons and classes
Cell Centered Database (CCDB) (DB)	http://ccdb.ucsd.edu/	Database of images in 2D, 3D, and 4D
Gene Expression Nervous System Atlas (GENSAT) (DB)	http://www.gensat.org/	Detection of the expression of genes in the mouse CNS with genetic techniques and with transgenic animals
GenePaint (DB)	http://www.genepaint.org/	Digital atlas of genetic expression patterns in adult mice and during development.
International Neuroinformatics Coordinating Facility (INCF) (DB)	http://www.genepaint.org/	Neuroinformatic tools for searching other databases and sources
NeuroMorpho (DB)	http://neuromorpho.org/	Digitally reconstructed neurons
NeuroGateway (DB)	http://neurogateway.org/catalog/goto.do?page=.sfngateway	Neuroscience sources, data and tools
Brain Architecture Management System (BAMS) (DB)	https://bams1.org/	Neuronal projections in the mouse brain
Collations of Connectivity Data on the Macaque Brain (CoCoMac) (BD)	http://cocomac.org	Neural projections in the macaque brain
Functional Anatomy of the Cerebro–Cerebellar System (FACCS) (DB)	http://www.rbwb.org/	3D atlas of axonal pathways in mice
BrainMaps.org (DB)	http://brainmaps.org	Interactive brain atlases for various species
Database on connectivity in humans (DB)	http://brainarchitecture.org	Postmortem study databases on connectivity in humans
Brain connectivity database (DB)	http://www.cma.mgh.harvard.edu/ibcd/	Database of studies on connectivity in humans.
Surface Management System DataBase (SumsDB) (DB)	http://brainvis.wustl.edu/wiki/index.php/Sums:About	Atlas showing connection density in macaques
SynapseWeb (BD)	http://synapses.clm.utexas.edu/	Reconstruction structures from electron microscopy images
Neocortical microcircuit database (DB)	https://bbp.epfl.ch/nmc-portal/welcome	Database of cellular connections
Atlas ICBM DTI-81 (DB)	http://www.loni.usc.edu/ICBM/Downloads/Downloads_DTI-81.shtml	Atlas of diffusion tensor imaging in humans
Anatomy Toolbox Fiber Tracts (DB)	http://www.fz-juelich.de/ime/spm_anatomy_toolbox	Atlas of white matter connectivity
WormAtlas (DB)	http://www.wormatlas.org	Atlas of C. elegans neurons
Molecular Anatomy of the Mouse Embryo Project (MAMEP) (DB)		Functional analysis of gene expression during development
EMBRYS (DB)	http://integbio.jp/dbcatalog/en/record/nbdc00867	Functional analysis of gene expression during development
EURExpress (DB)	http://www.eurexpress.org	Neuroanatomical atlas of transcriptome development in mice
The Brain Gene Expression Map BGEM (DB)	http://www.stjudebgem.org	Detect gene expression in the mouse CNS using genetic techniques and transgenic animals

Adapted from [9, 10, 36, 37].