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 |