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Table 2 Results for each individual encoding method

From: An SVM-based system for predicting protein subnuclear localizations

Method

AA

DI

TRI

D1X1

D2X2

D3X3

Compartment

Accuracy % [MCC]

PML BODY

26.3 [0.144]

13.2 [0.091]

0.0 [-0.045]

31.6 [0.183]

29.0 [0.139]

10.5 [0.066]

Nuclear Lamina

40.0 [0.363]

27.3 [0.256]

40.0 [0.228]

45.5 [0.340]

41.8 [0.279]

36.4 [0.331]

Nuclear Splicing Speckles

30.4 [0.326]

32.1 [0.358]

30.4 [0.365]

33.9 [0.321]

33.9 [0.316]

33.9 [0.391]

Chromatin

14.8 [0.174]

11.5 [0.106]

13.1 [0.191]

19.8 [0.215]

21.3 [0.248]

21.3 [0.271]

Nucleoplasm

25.3 [0.189]

26.7 [0.207]

12.0 [0.123]

20.0 [0.182]

22.7 [0.246]

28.0 [0.229]

Nucleolus

78.1 [0.374]

83.1 [0.357]

85.8 [0.357]

73.5 [0.357]

72.2 [0.364]

83.1 [0.367]

Single-localization Overall Accuracy and MCC

49.2 [0.262]

49.0 [0.229]

48.4 [0.203]

48.4 [0.266]

47.8 [0.265]

51.4 [0.276]

Multi-localization Overall Accuracy and MCC

64.1 [0.365]

57.6 [0.343]

58.7 [0.182]

60.9 [0.401]

57.6 [0.362]

64.1 [0.362]

  1. AA – amino acid composition encoding method;
  2. DI – di-peptide encoding method;
  3. TRI – tri-peptide encoding method;
  4. D1X1 – amino acid composition encoding vector transformed with D1;
  5. D2X2 – di-peptide encoding vector transformed with D2;
  6. D3X3 – tri-peptide encoding vector transformed with D3.