Allen Mouse Brain Atlas

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Document Collection

Documentation Allen Mouse Brain Atlas

Available Files

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Acknowledgement of Collaborators

Recognition of collaborators and others who provided assistance

Fine Structure Annotation

Explanation of the informatics methods used to create the fine structure annotations

In Situ Hybridization

Processes and procedures used to perform ISH

Informatics Data Processing

Design and implementation of the Informatics Data Pipeline (IDP)

Reference Atlas, Version 1 (2008)

Overview of the sagittal and coronal Allen Reference Atlases

Somatosensory Annotation

Technical white paper detailing the methods used to manually annotate the expression patterns of genes in the mouse somatosensory cortex

Comparison of the Top 1000 Genes

The 1000 most requested genes were analyzed as a validation of the ISH data

Cross Platform Validation

Methods for validating the data

Comparison of the Top 1000 Genes (Oct 2010)

An updated list of the 1000 most requested genes that were analyzed as a validation of the ISH data

Mouse Strains Study

Mouse Strains Study

ISH Platform Controls

Quality control standards for high-throughput RNA in situ hybridization data generation

PDF Article of the Sleep Study Results

AGEA User Guide

Overview of the Anatomic Gene Expression Atlas (AGEA)

Reference Atlas

Overview of the Allen Developing Mouse Reference Atlases

Reference Atlas, Version 2 (2011)

Overview of the sagittal and coronal Allen Reference Atlases

Explore More Resources

Documentation

Allen Developing Mouse Brain Atlas Brain Explorer R 3D Viewer

Learn about Allen Developing Mouse Brain Atlas Brain Explorer R 3D Viewer with comprehensive guides and examples from Allen Institute for Brain Science.

API

API For Mouse Brain Atlas

Learn about API For Mouse Brain Atlas with comprehensive guides and examples from Allen Institute for Brain Science.

Documentation

In Situ Hybridization ISH Data

Learn about In Situ Hybridization ISH Data with comprehensive guides and examples from Allen Institute for Brain Science.