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Table 2 Current data analysis and display modules

From: FACT – a framework for the functional interpretation of high-throughput experiments

Method Name Reference Method Description
Simple Count FACT Count and display of occurrences of annotation terms
GO-Term Comparison In part from GO::TermFinder [15] Detection of significantly overrepresented GO terms in Gene List, based upon hypergeometric tail probability
MedLiner Bio::Biblio (M. Senger, EBI) List Publications with co-occurrences of terms
CGH database Deutsches Krebsforschungs-zentrum, Div. Molecular Genetics (D) Compare CGH results to archived data
goCluster goCluster, G. Wrobel, available at http://www.bioconductor.org Detection of significantly overrepresented GO terms (based upon Fisher's exact test) in Clusters built with k-means algorithm
Hypergeometric Tail In part from GeneMerge [14] Detection of significantly overrepresented terms of any kind, based upon hypergeometric tail probability
CGH – Expression Comparison FACT Detect correlation between genomic and expression data sets, based on two-sided T-Tests
Chromosomal Plot FACT Display values or occurrences in genomic context