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Set-Cookie: hguid=2430944889_WspB6HYzPlffeMjTTiayPxzWxGhA; path=/; domain=.ucsc.edu; expires=Thu, 31-Dec-2037 23:59:59 GMT Content-Type:text/html Column GTEx - GTEx Gene Expression
Column GTEx - GTEx Gene Expression
 

Description

This column shows gene expression in 53 tissues based on RNA-seq data from the Genotype-Tissue Expression (GTEX) project. To view the GTEx tissues in anatomical context, see the GTEx Body Map.

By default, the column shows the ratio of expression of a gene in different tissues to the expression of the gene overall. A gene that is more highly expressed in a tissue is colored red, and a less expressed gene is shown in green. Values are colored on a logarithmic scale. Black indicates that a gene is neither over- nor under-expressed in the tissue. Uncolored boxes (white on most browsers) represent missing data. While admittedly somewhat counter-intuitive, these conventions are standard in gene expression datasets (from microarray technology).

Column Configuration

These options are available on the Configuration page, which can be accessed via the configure button in the top menu.
  • Absolute expression values: The display can be configured to show absolute expression values rather than ratio values. To toggle the display, select the absolute option from the values pulldown menu. Absolute expression values are shown in shades of gray, with higher expression levels shown in lighter shades. As with ratio values, absolute values are colored on a logarithmic scale.
  • Color scheme: Color-blind users can switch the coloring scheme from red/green to yellow/blue via the Expression ratio colors pulldown menu at the top of the Configuration page.
  • Tissues: By default, only selected tissues are shown. To display all 53 tissues, choose all from the pulldown menu.
  • Brightness: To increase or decrease the brightness of the expression colors, edit the number in the column's brightness text box. Values greater than 1.0 increase the brightness, while those less than 1.0 dim the color.

Methods

A brief summary of the GTEx gene expression methods is available on the related browser track description. For more information about GTEx tissue sample collection, RNA-seq and expression analysis methods, see the GTEx Portal documentation page.

Credits

The data for this column was produced and analyzed by the members of the GTEx Consortium and the GTEx Laboratory, Data Analysis, and Coordinating Center (LDACC) at the Broad Institute. and are available by download from the GTEx Portal.