The DAVID Gene Functional Classification Tool: a novel biological module-centric algorithm to functionally analyze large gene lists

Table 3 The top 20 annotation clusters identified by the DAVID Functional Annotation Clustering Tool

Annotation cluster	Representative annotation terms	Enrichment score
1	Negative regulation of biological process	5.38
2	Signal transduction	4.36
3	Inflammatory response	3.75
4	Extracellular region	3.69
5	Cytokine/chemokine activity	3.12
6	Viral genome replication	2.23
7	Cell death/apoptosis	2.19
8	Regulation of biological process	2.18
9	Organ morphogenesis	2.06
10	Regulation of cell cycle	2.01
11	Positive regulation of biological process	1.87
12	Biological process unknown	1.76
13	Physiological interaction between organisms	1.69
14	Antimicrobial humoral response	1.52
15	Transcription cofactor activity	1.46
16	Integral to plasma membrane	1.44
17	Coated vesicle membrane	1.42
18	DNA repair/DNA metabolism	1.38
19	Kinase activity	1.3
20	Myoblast differentiation	1.3

The genes of demo list 2 were analyzed by the Functional Annotation Clustering Tool. The top 20 annotation clusters out of 65 total clusters have group enrichment scores less than or equal to 0.05 (equivalent to 1.3 in minus log scale). The clusters are ordered by group enrichment score. The representative biology terms associated with the top 20 annotation clusters are manually selected, showing a much clearer and non-redundant view of the annotation terms associated with the study.

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