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Table 1 Clusters with focal aberrations in GBM.

From: Wavelet-based identification of DNA focal genomic aberrations from single nucleotide polymorphism arrays

Score P cluster Cytoband Start (KB) End (KB) # of PA Gene Symbol§
-363 0 9p21.3,p22.1 19,639 24,327 42 CDKN2A
266 0 7p11.2 54,145 55,790 25 EGFR
101 0 4q12 52,600 55,926 9 PDGFRA
66 0 1q32.1 200,858 202,110 5 MDM4†
60 0 12q15 67,074 68,482 6 MDM2
36 0.015 12q13.3,q14.1 55,820 57,257 4 CDK4
-35 0 13q14.2 46,386 47,510 3 RB1†
23 0.067 7q31.2 115,813 116,895 2 MET
-18 0 10q23.2,q23.31 88,974 89,943 3 PTEN
-16 0 19q13.2,q13.31 46,084 48,423 3  
-15 0 9p21.1 32,101 32,432 3  
8 0.001 17q22 47,672 49,744 2  
-7 0.034 1p33 50,351 50,689 2  
6 0 2p24.3 15,746 16,670 2 MYCN
-4 0 9p13.1 38,288 39,006 3 IGFBPL1
2 0.005 14q31.3 84,913 86,323 2  
-2 0 9p12 40,722 41,675 3  
-0.5 0 3p14.2 60,046 60,153 2  
-0.2 0.033 14q21.2,q21.3 42,887 43,214 2  
  1. 19 statistically significant clusters obtained from the HIGH analysis are shown when M = 12. 'Score' is the sum of values for positions in the cluster. 'Pcluster' is the statistical significance of the cluster. Positive (negative) values represent that a cluster contains amplified (deleted) focal aberrations. Clusters are ordered by the absolute value of the score. Cytoband, the start and end positions of cluster regions, the number of patients with focal aberrations (# of PA), and GBM or cancer related genes included in the cluster are indicated.
  2. §Gene annotations are based on hg18 human genome assembly.
  3. †These genes are closely located to the focal aberrations. MDM4 is located at chr1:202,752-202,794 KB, and RB1 at chr13:47,775-47,954 KB.