Skip to main content

Table 3 Functional analysis for DE genes at Nfkb1-/- 180 mins from different normalization strategies

From: Illumina WG-6 BeadChip strips should be normalized separately

   Array-level Strip-level
Source Term Count FDR Count FDR
GOTERM_BP_ALL immune system process 19 0.002 29 8.2E-5
GOTERM_BP_ALL immune response 15 0.001 22 1.1E-4
SP_PIR_KEYWORDS cytokine 9 0.01 13 3.3E-4
GOTERM_BP_ALL cytokine metabolic process 4 0.96 9 0.005
GOTERM_BP_ALL cytokine biosynthetic process 4 0.96 9 0.006
INTERPRO Fos transforming protein 3 1.0 5 0.006
GOTERM_BP_ALL cytokine production 5 0.88 10 0.01
GOTERM_BP_ALL leukocyte activation 7 0.92 13 0.01
GOTERM_BP_ALL hemopoietic or lymphoid organ development 7 0.89 14 0.01
GOTERM_BP_ALL regulation of cytokine biosynthetic process 3 1.0 8 0.011
GOTERM_BP_ALL immune system development 7 0.91 14 0.013
GOTERM_BP_ALL cell activation 7 0.93 13 0.013
GOTERM_BP_ALL hemopoiesis 7 0.94 13 0.014
GOTERM_BP_ALL positive regulation of translation 3 1.0 7 0.014
GOTERM_BP_ALL positive regulation of cellular biosynthetic process 3 1.0 7 0.019
KEGG_PATHWAY Cytokine-cytokine receptor interaction 10 0.056 14 0.027
GOTERM_MF_ALL cytokine activity 9 0.16 13 0.036
SP_PIR_KEYWORDS glycoprotein 36 0.017 51 0.18