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1. Juni 2015 · FunPat was tested to evaluate its ability to: 1) recover false negatives in the selection of DE genes without decreasing the false discovery rate; 2) correctly cluster the genes associated to the same temporal pattern; 3) give reproducible results on independent replicates.
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1. Juni 2015 · FunPat pipeline. FunPat takes as input the expression data and the functional annotations organized according to Gene Sets, which can be defined as GO terms, pathways or other sets depending on the annotation database used as input. A summary of FunPat analysis pipeline is displayed in Figure 1.
FunPat works with dynamic expression data comparing two experimental conditions (e.g. treatment vs. control) or a single condition vs. a baseline (e.g. time 0). FunPat offers the following types of analyses: – differential expression analysis of dynamic expression data; – model-based clustering of temporal expression profiles, without ...
