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Figure 1 | BMC Bioinformatics

Figure 1

From: Post hoc pattern matching: assigning significance to statistically defined expression patterns in single channel microarray data

Figure 1

StatiGen algorithm. Microarray data (e.g., from Affymetrix pivot tables) is parsed into signal intensity and presence/absence calls, and annotation information is appended. Data is then filtered according to user input (i.e., absent and unannotated probe sets are removed). Using the Filtered data, StatiGen constructs a Monte Carlo simulation of the data. Both the filtered and Monte Carlo datasets are tested by 1-ANOVA and post hoc all pairwise Fisher's PLSD tests. Results from all pairwise comparisons are used to encode pattern IDs (see Methods). Pattern frequency is give by # genes identified in pattern and is statistically compared (Z-test) to that pattern's frequency in a Monte Carlo simulation. Graphic output of significantly overrepresented patterns, along with a list of member genes and annotation information, is included and can be saved as a separate worksheet for further analysis.

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BMC Bioinformatics

ISSN: 1471-2105

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