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Documentation: Allen Mouse Brain Atlas
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Document

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Description

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[In Situ Hybridization|^ABADataProductionProcesses.pdf]

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Processes and procedures used to perform ISH

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[Informatics Data Processing|^InformaticsDataProcessing.pdf]

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Design and implementation of the Informatics Data Pipeline (IDP)

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[Reference Atlas, Version 1 (2008)|^AllenReferenceAtlas_v1_2008_102011.pdf]

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Overview of the sagittal and coronal Allen Reference Atlases

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[Reference Atlas, Version 2 (2011)|^AllenReferenceAtlas_v2_2011.pdf]

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Overview of the sagittal and coronal Allen Reference Atlases

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[Fine Structure Annotation|^FineStructureAnnotation.pdf]

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

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[Acknowledgement of Collaborators|^Collaborators.pdf]

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Recognition of collaborators and others who provided assistance


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Supplemental Data: Allen Mouse Brain Atlas
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Document

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Description

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[ISH Platform Controls|^ISH_Platform_Controls.pdf]

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

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[Cross Platform Validation|^Cross_Platform_Validation.pdf]

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Methods for validating the data

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[AGEA User Guide|^AGEA.pdf]

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Overview of the Anatomic Gene Expression Atlas (AGEA)

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FSA Reports

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Compilations of neuroanatomic and gene expression characteristics for key brain regions or nuclei

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[Somatosensory Annotation|^SomatosensoryAnnotationWhitePaper.pdf]

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

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[SomatosensoryAnnotation.xls|^SomatosensoryAnnotation.xls]

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Spreadsheet containing the somatosensory annotations

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[Comparison of the Top 1000 Genes|^Top1000GenesAnalysis.pdf]

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

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[Comparison of the Top 1000 Genes (Oct 2010)|^Top1000genesanalysisfina_2010.pdf]

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

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