Additional file 3:.
GO function annotation results of 4565 differentially expressed genes. Functional enrichment for over- and under-expressed genes by more than two-fold in the WED-immunized group relative to the mock-immunized group generated by DAVID (v6.7). Gene functional enrichment was performed using the default parameters in DAVID to obtain an adjusted p-value <0.05 for the test gene group versus the zebrafish gene ontology (GO) annotation set. The fold-enrichment cut-off suggested by DAVID functional annotation was 1.5. The Biological Progress (BP-up and BP-down), Cellular Components (CC-up and CC-down), and Molecular Functions (MF-up and MF-down) associated with the GO analysis at different levels were also analyzed by BiNGO software. The hypergeometric test with Benjamini & Hochberg FDR were performed by the default parameters to obtain an adjusted p-value (<0.05) between the test gene group and the merged non-redundancy zebrafish (Danio rerio) and mouse (Mus musculus) GO annotation set.
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Yang et al. BMC Genomics 2012 13:319 doi:10.1186/1471-2164-13-319