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Figure 3 | BMC Bioinformatics

Figure 3

From: The dChip survival analysis module for microarray data

Figure 3

The dChip chromosome view of copy numbers and survival association scores. The SNP copy numbers in all the chromosomes are displayed in log2 ratios (red for gains and blue for losses), with SNPs on rows ordered by chromosome and positions, and samples on columns ordered by survival time. Hyperdiploid samples (copy number > 2.5 for a number of chromosomes) tend to locate towards the right, where samples have longer survival. The first blue curve on the right side is SNP-wise, -log10 transformed p-value from the log-rank test, e.g. 3 correspond to a p-value of 0.001. The second blue curve on the right is the Cox model z-scores. The absolute z-scores are displayed SNP-wise: the red color for positive and blue color for negative scores. The vertical red lines indicate the genome-wide score threshold at the significance 0.05 level using permutation analysis (log-rank: 5.71; Cox model: 5.31).

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