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Table 3 Accuracy of NoD predictions in all organisms investigated

From: NoD: a Nucleolar localization sequence detector for eukaryotic and viral proteins

 

distinct protein count

NoLS count

TPa count

FPb count

Sensitivity

PPVc

Specificityd

A. Eukaryotes

Mammals e

8

9

8

1

0.89

0.89

0.88

   H. sapiens

5

6

5

0

0.83

1.0

1.0

   M. musculus

3

3

3

1

1.0

0.75

0.67

Amoeba e

1

2

1

1

0.5

0.5

0.0

Dictyostelium discoideum

1

2

1

1

0.5

0.5

0.0

Molluscs e

1

2

2

0

1.0

1.0

1.0

   A. kurodai

1

2

2

0

1.0

1.0

1.0

Trypanosomes e

2

3

0

0

0

N/A

1.0

   T. brucei

1

1

0

0

0

N/A

1.0

   T. cruzi

1

2

0

0

0

N/A

1.0

Plants e

2

2

2

1

1.0

0.67

0.5

   S. lycopersicum

1

1

1

1

1.0

0.50

0.0

   A. thaliana

1

1

1

0

1.0

1.0

1.0

B. Viruses

   Mammalian host

8

8

6

1

0.75

0.86

0.88

   Plant host

2

2

1

0

0.5

1.0

1.0

   Avian host

2

2

1

2

0.5

0.33

0.0

   Fish host

1

1

1

0

1.0

1.0

1.0

  1. a TP: true positive
  2. b FP: false positive
  3. c PPV: positive predictive value
  4. d The specificity was calculated as the number of proteins considered for which no FP was identified divided by the number of proteins considered (this defines all non NoLS regions as negatives).
  5. e For each of the count columns, the top row of each of the subsections in the Eukaryotes section represents the sum of the rows below it belonging to this subsection.