# Documentation: Allen Mouse Brain Atlas **URL:** \ **Category:** Allen Mouse Brain Atlas\ **Created:** [January 4, 2024, 7:59pm UTC](https://community.brain-map.org/t/documentation-allen-mouse-brain-atlas/2846 "2024-01-04T19:59:35Z")\ **Posts on this page:** 2\ **Page:** 1
**Author:** ![tylermo](https://yyz1.discourse-cdn.com/flex027/user_avatar/community.brain-map.org/tylermo/32/155_2.png) [@tylermo](https://community.brain-map.org/u/tylermo)\ **Post date:** [January 4, 2024, 7:59pm UTC](https://community.brain-map.org/t/documentation-allen-mouse-brain-atlas/2846/1 "2024-01-04T19:59:35Z")
# Documentation: Allen Mouse Brain Atlas | **Document** | **Description** | | --- | --- | | [In Situ Hybridization](https://community.brain-map.org/uploads/short-url/mMlUJMrt3XwPgS6ZiTAHd1g4yj8.pdf) | Processes and procedures used to perform ISH | | [Informatics Data Processing](https://community.brain-map.org/uploads/short-url/joEqZbQ39eUu308mREy5DWQG4bg.pdf) | Design and implementation of the Informatics Data Pipeline (IDP) | | [Reference Atlas, Version 1 (2008)](https://community.brain-map.org/uploads/short-url/ocQbspEcugP5hFZzRWUn5lemGmI.pdf) | Overview of the sagittal and coronal Allen Reference Atlases | | [Reference Atlas, Version 2 (2011)](https://community.brain-map.org/uploads/short-url/h9OgO73vuifecFKunYWTMcPVyuO.pdf) | Overview of the sagittal and coronal Allen Reference Atlases | | [Mouse CCF, Reference Atlas, Version 3 (2015)](https://community.brain-map.org/uploads/short-url/1iSu6ECUHtPXOCatYIme5nWiUa8.pdf) | Overview of the design and implementation of the Allen Mouse Common Coordinate Framework | | [Fine Structure Annotation](https://community.brain-map.org/uploads/short-url/dlfLHmZnGlsKkyRCYkzggmWXgar.pdf) | Explanation of the informatics methods used to create the fine structure annotations | | [Acknowledgement of Collaborators](https://community.brain-map.org/uploads/short-url/d1fKykSJFtfH2oEVvDa8hbu7zEF.pdf) | Recognition of collaborators and others who provided assistance | # Supplemental Data: Allen Mouse Brain Atlas | **Document** | **Description** | | --- | --- | | [ISH Platform Controls](https://community.brain-map.org/uploads/short-url/vVReIAQTPvhGg9FjbNL6yVGoc2A.pdf) | Quality control standards for high-throughput RNA in situ hybridization data generation | | [Cross Platform Validation](https://community.brain-map.org/uploads/short-url/8OFdPSyAqDO12GlTNr95SLKqeF9.pdf) | Methods for validating the data | | [AGEA User Guide](https://community.brain-map.org/uploads/short-url/tOe0XPSwcjHw4vPjG69hpnIurzl.pdf) | Overview of the Anatomic Gene Expression Atlas (AGEA) | | [Sleep Study](https://community.brain-map.org/uploads/short-url/smjnkTAx6AZd8fh0yOn7VNjv3Ly.pdf) | PDF Article of the Sleep Study Results | | [Mouse Strains Study](https://community.brain-map.org/uploads/short-url/oCSvtJWPpNKeugYglINfRk0dyid.pdf) | Mouse Strains Study | | [Somatosensory Annotation](https://community.brain-map.org/uploads/short-url/dKMgx5VvgNjkn1aOOj5PJiTfCU5.pdf) | 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](https://community.brain-map.org/uploads/short-url/6SDfJqctLmH17OeXx7e001UBFrZ.pdf) | The 1000 most requested genes were analyzed as a validation of the ISH data | | [Comparison of the Top 1000 Genes (Oct 2010)](https://community.brain-map.org/uploads/short-url/h5oBH1H6rz5eGnpRWcofq7Z46Ax.pdf) | An updated list of the 1000 most requested genes that were analyzed as a validation of the ISH data | ---
**Author:** ![tylermo](https://yyz1.discourse-cdn.com/flex027/user_avatar/community.brain-map.org/tylermo/32/155_2.png) [@tylermo](https://community.brain-map.org/u/tylermo)\ **Post date:** [February 22, 2024, 1:59pm UTC](https://community.brain-map.org/t/documentation-allen-mouse-brain-atlas/2846/2 "2024-02-22T13:59:24Z")