Figure 4 | Modern Pathology

Figure 4

From: Next-generation biobanking of metastases to enable multidimensional molecular profiling in personalized medicine

Figure 4

Genomic profiling of biopsies from three patients enrolled in the Q-CROC-01 study. (a) Array comparative genomic hybridization. Log 2 normalized data are displayed using Integrative Genomics Viewer. The range of the y axis is −2 to 2 in log 2. Bars above the horizontal line represent duplication events and bars below the horizontal line represent deletion events. (b) Methylation profiling. Data represents log 2 normalized data of anti 5-methylcytidine IP signal divided by the input DNA signal. Y axis range is between −2 and 2. Bars above the horizontal line represent methylation events and bars beneath the horizontal axis represent unmethylated regions. (c) miRNA profiling. One hundred and thirty-eight miRNAs were detected in all the patients. Delta cycling thresholds (CTs) are presented. Red depicts miRNA more expressed than the endogenous control U6 snRNA, whereas green depicts lower expression than U6. (d) Alternative splicing profiling using the RNomics platform of 96 selected splicing events. Seventy-eight genes have two selected isoforms detected in all the three samples. The splicing index corresponds to the percentage of the unspliced form of the gene over the total splicing of the gene composed of the spliced and unspliced forms. Red indicates that the unspliced form is the dominant form, whereas blue indicates that the spliced form is dominant. (e) Gene expression profiling. Data represent the log 2 normalized intensity. Only genes detected in all three patients are displayed (12 299 genes). Red depicts genes highly expressed, whereas blue depicts genes lowly expressed. For panels c–e, the samples are displayed in the order determined by the clustering algorithm.

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