Globaltest and GOEAST: two different approaches for Gene Ontology analysis

BMC Proceedings

Table 1 Top 5 GO terms in contrast MM8-PM8 identified by Globaltest

GO term ID	GO term description	Number of genes in GO term^a	Number of genes affected^b	p-value	FDR adjusted p-value^c
Biological Process
GO:0051017	actin filament bundle formation	6	2	0.002	0.047
GO:0006996	organelle organization and biogenesis	3	2	0.002	0.047
GO:0015816	glycine transport	2	1	0.003	0.047
GO:0016042	lipid catabolic process	7	6	0.003	0.047
GO:0009113	purine base biosynthetic proces	4	2	0.003	0.047
Molecular function
GO:0019976	interleukin-2 binding	2	2	0.002	0.040
GO:0015187	glycine transmembrane transporter activity	2	1	0.003	0.040
GO:0031013	troponin I binding	2	1	0.003	0.040
GO:0003847	1-alkyl-2-acetylglycerophosphocholine....	2	2	0.003	0.040
GO:0004438	phosphatidylinositol-3-phosphatase activity	2	2	0.003	0.040
Cellular component
GO:0001726	ruffle	18	9	0.003	0.034
GO:0005719	nuclear euchromatin	2	1	0.003	0.034
GO:0005884	actin filament	12	6	0.003	0.034
GO:0000307	cyclin-dependent protein kinase...	5	3	0.004	0.034
GO:0016529	sarcoplasmic reticulum	4	3	0.004	0.034

^a Number of genes within each GO term.
^b Genes differentially expressed with z-score > 2.0
^c The p-values were adjusted for multiple hypotheses testing with Benjamini and Hochberg to control the false discovery rate (FDR).

ISSN: 1753-6561