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Table 2 Effect of disease modularization on the performances of different approaches

From: Inference of domain-disease associations from domain-protein, protein-disease and disease-disease relationships

  Disease (OMIM ID)
RENAL TUBULAR ACIDOSIS, DISTAL, AUTOSOMAL DOMINANT (OMIM: 179800) OSTEOPETROSIS, AUTOSOMAL RECESSIVE 3; OPTB3 (OMIM: 259730)
Association MLE DPEA Bayesian PE Association MLE DPEA Bayesian PE
Domain
(Pfam ID)
ATP-synt_ab
(PF00006)
0.5 0.0971 0.0041 0.6256 0.0476 0.25 0.0930 0.0024 0.6084 0.0476
ATP-synt_ab_N
(PF02874)
0.5 0.0971 0.0041 0.6843 0.0476 0.25 0.0930 0.0024 0.6366 0.0476
Carb_anhydrase
(PF00194)
0.5 0.1566 0.062 0.8031 0.1646 0.5 0.1499 0.0541 0.7741 0.1210
HCO3_cotransp
(PF00955)
1 0.1300 0.0065 0.7569 0.0714 0.5 0.1086 0.0003 0.6438 0.0714
Band_3_cyto
(PF07565)
1 0.1300 0.0065 0.7078 0.0714 0.5 0.1086 0.0003 0.6859 0.0714
ATP-synt_ab_C
(PF00306)
1 0.1069 0.0002 0.6879 0.0476 0.5 0.0983 0.0001 0.6048 0.0476
TNF
(PF00229)
0 0.0806 0.1900 0.4526 0 0.125 0.0968 0.1906 0.5360 0.1250
IMPDH
(PF00478)
0 0.0874 0.007 0.4572 0 0 0.0878 0.0059 0.4301 0
CBS
(PF00571)
0 0.0851 0.0676 0.4381 0 0.1667 0.0910 0.0646 0.6035 0.06250
Voltage_CLC
(PF00654)
0 0.0874 0.0058 0.4547 0 0.5 0.1040 0.0061 0.6864 0.06250
V_ATPase_I
(PF01496)
0 0.0808 0.0823 0.4801 0 0.25 0.1103 0.0823 0.7057 0.1250
  1. The scores of predicting the associations between two diseases RENAL TUBULAR ACIDOSIS, DISTAL, AUTOSOMAL DOMINANT (OMIM: 179800) as well as OSTEOPETROSIS, AUTOSOMAL RECESSIVE 3; OPTB3 (OMIM: 259730)), and their candidate domains ATP-synt_ab (PF00006), ATP-synt_ab_N (PF02874), Carb_anhydrase (PF00194), HCO3_cotransp (PF00955), Band_3_cyto (PF07565), ATP-synt_ab_C (PF00306), TNF (PF00229), IMPDH (PF00478), CBS (PF00571), Voltage_CLC (PF00654) as well as V_ATPase_I (PF01496), in terms of the Association, MLE (fp = 0, fn = 0.9), DPEA, Bayesian (u p , u n  = 0, v p , v n  = 1, and α = 2, β = 2), and PE (r = 100 %, and pw threshold ≤ 0.01) approaches, respectively