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 Welcome   to Neurogenetics Online

Welcome to and The Informatics Center for Mouse Neurogenetics. This server hosts the Mouse Brain Library, an expanding collection of high-resolution histological images, atlases, MRIs, and databases on brain structure of more than 120 different lines of mice. Nervenet also includes several useful genetics and gene mapping databases to download (SNP databases, Map Manager databases, and the Portable Dictionary of the Mouse Genome). The publications section includes revised, expanded, and annotated papers, tutorials, and reviews on neurogenetics, gene mapping, complex trait analysis, stereology, and the control of neuron number.

To submit to the database of your choice use the links listed in the scroll-down menu at the top or use the [Database Main Page.]

  Annotated List of Papers Reviews Grants and Abstracts [ HTML & PDF Format ]

Brief Contents Overview

Short Course Tutorial in Quantitative Neurogenetics

Efficient methods to quantify cells in thick or thin sections, particularly direct three-dimensional counting and several adaptations of the disector make it easier to obtain unbiased estimate of neuroanatomical traits. As a practical matter, the most important advance in quantitative techniques has been the rapid hybridization of microscopes, video systems, fast microcomputers, and powerful application programs such as NIH Image. [More]

Developmental and Genetic Control of Cell Number in Retina This review is divided into sections that consider developmental, genetic, and functional factors that modulate types and numbers of cells in the vertebrate retina from these two complementary viewpoints.. [View Paper]
Providing access to slide and tissue banks This paper describes highly effective bioinformatic and software solutions developed over the past three years in the laboratories of the Informatics Center for Neurogenetics. [More..]

A Collaborative Cross for High-Precision Complex Trait Analysis. CTC Workgroup Report

This Report explains our reasoning and provides an outline of the methods and costs associated with making the Collaborative Cross. [Read Review]

  The iScope Project

iScope What can I do with the iScope system?

Internet microscopy from the University of Tennessee in Memphis

Control a research-grade light microscope: By downloading our free control software (available for Windows, Linux and Mac OS X support), you can control one of our microscopes in real time from your desktop computer and explore a wealth of mouse brain tissue.. [Help]

  The WebQTL Project

The WebQTL Project What is WebQTL?

The WebQTL Project

WebQTL is an unique World Wide Web service that makes it possible for neurogeneticists to rapidly identify and map genes and quantitative trait loci (QTL), particularly those related to brain structure and behavior. WebQTL allows rapid QTL mapping of CNS traits for major recombinant inbred (RI) sets, for shared intercrosses and backcrosses, and particularly for a very large advanced intercross population (the G10). (Please see for further information)

  The Complex Trait Consortium

CTC Review CTC Publications and Presentations

Quantitative genetics and QTL mapping have undergone a revolution in the last decade. Progress in the next decade promises to be even more rapid, and prospects for exploring the complex interplay between gene variants, disease, and the environment will be radically improved. [CTC Publications]

  Neuroinformatics The Human Brain Project
Funding - The MBL and iScope projects are supported as part of the Informatics Center for Mouse Neurogenetics, a Human Brain Project/Neuroinformatics program funded jointly by the National Institute of Mental Health, National Institute on Drug Abuse, and the National Science Foundation (P20-MH 62009). More

News & Updates

Genetic Regulatory Networks of the Developing Cerebellum

GenomeMixer 0.54c is a cross-platform application that allows you to simulate complex multi-generational breeding schemes.

Watch Gumbo 2.3 Movie Tutorial

Gumbo v2.7 and Aria 3-D v1.5 is also available

Watch WebQTL Demo



The MBL Process This manual explains the process of embedding brain tissue in 12% celloidin, cutting the tissue with a microtome, staining and coverslipping the brain sections, the images of which are then posted on the internet for research purposes.

Browse the library

Brain Atlases 8/2/02 Horizontal A/J Atlas. This is a high resolution (2.6µ/pixel) atlas in 8-bit color.



Databases and tables of mouse brain data.
Phenome Databases
Genomic Databases


Genome Mixer 0.54c
Microarray data submissions to ArrayExpress.
Gumbo v2.7
Control a research-grade light microscope.
Aria 3D v1.5
(Automated Remote Image Analysis) for viewing focus-through movies and stereology. 2022modify this page Page maintained by R.Williams | A.Centeno  Last updated: 

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