GISTIC identifies genomic regions that are significantly gained or

lost across a set of tumors. The pipeline first filters out normal

samples from the segmented copy-number data by inspecting the TCGA

There were 11 tumor samples used in this analysis:  13 significant arm-level results, 4 significant focal amplifications, and 4 significant focal deletions were found.

Q value (bottom). The green line represents the significance

This is the comprehensive list of <strong>amplified</strong> genes in the wide peak for 11q13.3.

Genes in bold are cancer genes as defined by  <a href="http://www.sanger.ac.uk/genetics/CGP/Census/">The Sanger Institute: Cancer Gene Census</a>

This is the comprehensive list of <strong>amplified</strong> genes in the wide peak for 14q13.3.

This is the comprehensive list of <strong>amplified</strong> genes in the wide peak for 8q24.21.

This is the comprehensive list of <strong>amplified</strong> genes in the wide peak for Xq28.

Amplifications Table - 4 significant amplifications found. Click the link in the last column to view a comprehensive list of candidate genes. If no genes were identified within the peak, the nearest gene appears in brackets.

This is the comprehensive list of <strong>deleted</strong> genes in the wide peak for Yq11.223.

This is the comprehensive list of <strong>deleted</strong> genes in the wide peak for 9p21.3.

This is the comprehensive list of <strong>deleted</strong> genes in the wide peak for 21p11.2.

This is the comprehensive list of <strong>deleted</strong> genes in the wide peak for 22q13.31.

Deletions Table - 4 significant deletions found. Click the link in the last column to view a comprehensive list of candidate genes. If no genes were identified within the peak, the nearest gene appears in brackets.

Arm-level significance table - 13 significant results found. The significance cutoff is at Q value=0.25.

Segmentation File: The segmentation file contains the segmented

data for all the samples identified by GLAD, CBS, or some other

segmentation algorithm.  (See GLAD file format in the Genepattern