PGS Documentation

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SubtitleTextGO ANOVA setup dialog. Including a factor in the ANOVA model (ANOVA Factors) will identify gene ontology (GO) categories whose expression is different across the genes within the category, by the factor of interest. Including a factor as a Disruption Factor will identify GO categories where the expression of the genes within the category are affected but not uniformly across the genes withing the category. Genes (probesets) can be excluded based on expression levels, to reduce the noise.
AnchorNameSetting up GO ANOVA

 

Experimental Factors

Factors inherent to the experiment include variables that would be considered as the experimental variables during experiment design. Generally this will include all variables necessary to answer the questions of the researcher. Examples may include factors such as tissue type, disease state, treatment, or dosage.

Sometimes factors do not act independently of each other. For example, different dosages of a drug may affect patients differently over time, or a drug may not affect tissues equally as in many toxicity studies. If the effect of one variable on the other is either suspected of occurring, or of particular interest, an interaction between the two factors should be included. To do this, select the two factors simultaneously by CTRL-clicking the factors and then select Add Interaction.

 

 

Additional assistance

 

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