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Figure 2 | BMC Genomics

Figure 2

From: A statistical framework for consolidating "sibling" probe sets for Affymetrix GeneChip data

Figure 2

The algorithm flowchart. The figure demonstrates the outline of identification and consolidation of qualified sibling probe sets based on statistical tests. We are interested in studying the differentially expressed genes across treatments. The analysis starts from properly normalized and summarized expression scores for each probe set. For genes that are represented by multiple probe sets (sibling probe sets), insignificant interaction effect (trt*ps) between treatment (trt) and probesets (ps) suggests consolidating sibling probe sets and P-values of the treatment effect are obtained from the two-way ANOVA model. For the gene corresponding to a single probe set and those probe sets that are not eligible for consolidating, i.e. significant interaction effect (trt*ps), P-values of the treatment effect are reported from the one-way ANOVA model. Then P-values are combined as a final result for screening differentially expressed genes across treatments.

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