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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