Table 2 Examples of RSS-NET highlighted genes that have not reached genome-wide significance in the GWAS Catalog1 at the time of analysis.

From: Modeling regulatory network topology improves genome-wide analyses of complex human traits

Trait Gene (Role) \({P}_{1}^{{\mathsf{base}}}\) \({P}_{1}^{{\mathsf{near}}}\) \({P}_{1}^{{\mathsf{bma}}}\) \({P}_{1}^{{\mathsf{net}}}\) (Network, BF) Mouse trait Therapeutic and clinical evidence
BMI NEXN (TG) 0.71 0.79 0.89 0.90 (Muscle, 9.31 × 1012) CS, Muscle Cardiomyopathy
  CDX2 (TF) 0.61 0.70 0.83 0.86 (NK cell, 3.95 × 1013) DS, Growth  
WAIST BSCL2 (TG) 0.80 0.68 0.87 0.87 (Esophagus, 6.78 × 10239) Adipose, Growth Berardinelli-Seip syndrome
  FOXP2 (TF) 0.56 0.59 0.73 0.73 (Esophagus, 6.78 × 10239) Growth, NS Speech-language disorder-1
BC ADSL (TG) 0.76 0.80 0.91 0.92 (Aorta, 8.27 × 108) CS, Eye Adenylosuccinase deficiency
  SYNE1 (TG) 0.57 0.63 0.89 0.90 (Esophagus, 6.30 × 107) Growth, Muscle AMC3, EDMD4, SCAR8
RA TAL1 (TF) 0.71 0.79 0.91 0.93 (CD4, 3.02 × 1052) Immune, Tumor Acute lymphocytic leukemia
  FHIT (TG) 0.30 0.60 0.90 0.91 (CD4, 3.02 × 1052) Immune, Tumor  
  FLT3 (TG) 0.33 0.57 0.73 0.73 (B cell, 3.31 × 1057) Immune, Tumor Acute myeloid leukemia
IBD FHIT (TG) 0.63 0.87 0.95 0.95 (CD4, 5.32 × 1033) Immune, Tumor  
  GATA3 (TF) 0.85 0.83 0.94 0.94 (NK cell, 5.07 × 1035) Immune, Renal Barakat syndrome
  RORA (TF) 0.66 0.78 0.87 0.90 (B cell, 1.49 × 1032) Immune, NS Intellectual disability
  NFKB2 (TF) 0.74 0.85 0.84 0.88 (B cell, 1.49 × 1032) Immune Immunodeficiency, DIMS-0150*
  LRBA (TG) 0.42 0.58 0.72 0.72 (NK cell, 5.07 × 1035) Immune Immunodeficiency
  DOCK2 (TG) 0.38 0.53 0.71 0.71 (NK cell, 5.07 × 1035) Immune Immunodeficiency
HDL MT1G (TG) 0.10 0.09 0.98 0.98 (Liver, 2.81 × 1021) CS, Metab.  
  RETSAT (TG) 0.79 0.80 0.95 0.95 (Liver, 2.81 × 1021) Adipose, Metab.  
  ESR1 (TF) 0.77 0.82 0.95 0.95 (Liver, 2.81 × 1021) CS, Metab. Myocardial infarction
  HCAR3 (TG) 0.85 0.85 0.92 0.92 (Monocyte, 4.75 × 1015) Metab. ARI-3037MO*
  TNNC1 (TG) 0.48 0.45 0.78 0.78 (Liver, 2.81 × 1021) CS, Muscle Cardiomyopathy, Levosimendan*
LDL RAF1 (TG) 0.79 0.83 0.90 0.90 (Aorta, 3.71 × 1027) CS, Immune Cardiomyopathy, Semapimod*
  APOA1 (TG) 0.70 0.76 0.90 0.90 (Liver, 7.66 × 1027) CS, Metab. Amyloidosis, HDL deficiency
  ACADVL (TG) 0.69 0.59 0.85 0.85 (NK cell, 5.18 × 1030) Liver, Metab. VLCAD deficiency
T2D ITGB6 (TG) 0.75 0.99 0.99 0.99 (Ileum, 4.52 × 1062) Immune, Metab. Amelogenesis imperfecta type IH
HR TKT (TG) 0.65 0.67 0.92 0.93 (Aorta, 2.43 × 107) CS, Growth SDDHD
CAD OSM (TG) 0.56 0.78 0.86 0.86 (Aorta, 1.09 × 1027) Immune, Metab. GSK2330811*
  TRIB1 (TG) 0.43 0.68 0.85 0.85 (Adipose, 1.67 × 1029) Adipose, Metab.  
  TAB2 (TG) 0.19 0.43 0.61 0.61 (CD8, 1.13 × 1025) CS Congenital heart defects
AF TPMT (TG) 0.88 0.93 0.99 0.99 (Ileum, 4.43 × 1013) Metab. Poor metabolism of thiopurines-1
  RUNX1 (TF) 0.44 0.60 0.88 0.89 (Heart, 2.15 × 1014) CS, Immune Acute myeloid leukemia, FPDMM
  CSF3 (TG) 0.56 0.72 0.88 0.88 (Muscle, 8.55 × 1014) Blood, Immune Interleukin-3*
LOAD CASP2 (TG) 0.99 1.00 1.00 1.00 (CD8, 8.31 × 1026) Cellular, NS Caspase-2*
  TTR (TG) 0.64 0.92 0.94 0.94 (Pancreas, 3.53 × 1020) Metab. Amyloidosis, Inotersen*, Patisiran*
SCZ RORA (TF) 1.00 1.00 1.00 1.00 (Cortex, 5.39 × 10128) Neuron, NS Intellectual disability
  ERBB4 (TG) 1.00 1.00 1.00 1.00 (Putamen, 7.22 × 10116) Neuron, NS Amyotrophic lateral sclerosis-19
  NFIB (TF) 0.97 0.97 0.98 0.98 (Cortex, 5.39 × 10128) NS MACID
  GRIK2 (TG) 0.90 0.94 0.97 0.97 (Cerebellum, 3.15 × 10129) Neuron, NS Mental retardation
  SYT1 (TG) 0.84 0.89 0.93 0.93 (Cerebellum, 3.15 × 10129) Neuron, NS Baker-Gordon syndrome
  ESR1 (TF) 0.80 0.84 0.93 0.93 (Colon, 1.07 × 10141) Neuron, NS Migraine
  NTRK2 (TG) 0.78 0.84 0.91 0.91 (Cerebellum, 3.15 × 10129) Neuron, NS DEE58
  LRRK2 (TG) 0.73 0.78 0.86 0.86 (Monocyte, 5.85 × 10131) Neuron, NS Parkinsonism, DNL151*, DNL201*
  C9orf72 (TG) 0.74 0.78 0.83 0.83 (Spleen, 1.44 × 10141) Neuron, NS FTDALS1
  SNCA (TG) 0.60 0.66 0.74 0.74 (Cerebellum, 3.15 × 10129) Neuron, NS Parkinsonism, BIIB054*
NEU LMBRD1 (TG) 0.42 0.66 0.94 0.94 (Ileum, 8.56 × 1022) Metab. MAHCF
  PRKCQ (TG) 0.36 0.56 0.90 0.91 (Spleen, 2.13 × 1019) Immune, NS  
  ATP1A2 (TG) 0.33 0.39 0.76 0.78 (Putamen, 2.12 × 1019) Neuron, NS AHC1, FHM2
  1. AMC3: myogenic-type arthrogryposis multiplex congenita-3. EDMD4: Emery-Dreifuss muscular dystrophy-4. SCAR8: autosomal recessive spinocerebellar ataxia-8. VLCAD: very long-chain acyl-CoA dehydrogenase. SDDHD: short stature, developmental delay, and congenital heart defects. FPDMM: familial platelet disorder with associated myeloid malignancy. MACID: acquired macrocephaly with impaired intellectual development. FTDALS1: frontotemporal dementia and/or amyotrophic lateral sclerosis. MAHCF: methylmalonic aciduria and homocystinuria of the cblF type. AHC1: alternating hemiplegia of childhood-1. FHM2: familial hemiplegic migraine-2. The remaining abbreviations are the same as in Table 1.