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Table 4 Complete target gene-based annotations for two example transcription factors (TFs) (A) NFKB1 and (B) SUZ12. Three types of information are provided (1) the top TF neighbors obtained by TF distance (target-gene overlap measured by Pearson’s phi coefficient) < 0.8, (2) the target functions in six categories, and (3) the functional diversities in six categories and total diversity. See Additional file 1: Figure S9 for a visualization of the regulator and target function networks surrounding NFKB1

From: Systematic target function annotation of human transcription factors

A
Annotation of NFKB1 Similar TFs: REL, BCL11A
  Significant target functions (log 10 P value) Functional diversity
GWAS phenotype Arthritis, rheumatoid (8.4) Psoriasis (6.95) Colitis, ulcerative (6.29) 2.0
Mendelian disease Disease of cellular proliferation (7) Organ system cancer (6.84) Cancer (6.64) + 10 more 2.5
PD/PK pathway EGFR inhibitor pathway (PD) (6.13) Doxorubicin pathway (cancer cell) (PD) (5.47) 1.2
Signaling/metabolic pathway Immune system (17.11) Cytokine signaling in immune system (14.62) Interferon gamma signaling (10.89) + 46 more 13.2
Biological process (GO) Adaptive immune response (5.86) Regulation of protein metabolic process (5.81) Regulation of cytokine production (5.72) + 71 more 10.2
Molecular function (GO) Cytokine activity (14.33) Receptor binding (8.3) Chemokine activity (7.22) + 4 more 3.2
  Total Diversity: 23.7
B
Annotation of SUZ12 Similar TFs: CTBP2
  Significant Target Functions (log 10 P value) Functional diversity
GWAS phenotype 0
Mendelian disease Heart septal defect (8.13) Congenital heart disease (7.57) Disease (7.14) + 6 more 1.8
PD/PK pathway 0
Signaling/metabolic pathway Regulation of beta cell development (12.19) Regulation of gene expression in beta cells (6.26) Class b 2 secretin family receptors (4.08) 1.2
Biological process (GO) Anatomical structure development (40.03) Multicellular organismal development (33.22) System development (32.56) + 29 more 5.8
Molecular function (GO) Transcription factor activity (36.68) DNA binding (33.55) RNA polymerase II transcription factor activity (11.83) + 1 more 2.2
  Total Diversity: 8.3