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ALLEN Human Brain Atlas

This is the online help for the Human Brain Atlas web application.

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The Data Set

The Allen Human Brain Atlas consists of two primary sources of gene expression data: microarray numerical value data and in situ hybridization (ISH) image data.

For complete details please see the Microarray Platform Selection, Whole Brain Microarray and In SituHybridization white papers on our Documentation page.

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Supported Platforms

This application has been tested with the following configurations. You may notice irregularities with software that has not been tested. There are known issues when viewing heat map data using unsupported browsers.

Microsoft Windows XP SP3

Apple Macintosh OS X 10.6.7

Internet Explorer 8.0

Safari 5.0.5

Firefox 4.0

Firefox 4.0

Flash 10.2.159.1

Flash 10.2.159.1

Before you install/upgrade Flash Player, uninstall existing players using the Adobe uninstall program.
There are uninstallers available for Windows or Macintosh.

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Microarray Data

The Data Set

The website offers three types of searches to allow a user to: (1) limit the visualization to a subset of probes (or genes) of interest (Gene Search); (2) use a 'seed' gene to find other genes with similar expression patterns (Find Correlates); and (3) compare expression between different anatomic regions (Differential Search).

Gene Search

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To search for a gene category by disease, pathway, cell type or function, click on the relevant search term in the tag cloud. To search for probes associated with a specific gene or group of genes, select the Gene Search radio button and type the gene name, gene symbol or Entrez Gene ID in the search box (multiple genes searches require an OR between gene names) before clicking the Search button.

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