SPEP Results

Signal peptide recognition:
 
 
organism type
TP
TN
FP
FN
Q3=(TP+TN)/ALL
cross-validation analysis
eukaryot

 
1119
1069
73
39
95.1 %
gram positive

 
127
125
4
5
96.5 %
gram negative

 
293
284
13
8
96.5 %
Prokaryot Lipoprotein

 
gram positive

 
139
//
//
2
98.5 %
gram negative

 
259
//
//
9
96.6 %
- TP - True positive (Observed signal pepdide predicted Signal peptide)
- TN - True negative
- FP - False Positive
- FN - False Negative
 

Discriminative analisys between lipoproteins and proteins with signal peptides
 
organism type
P(sp)
Q(sp)
P(lp)
Q(lp)
Q3=(TP+TL)/ALL
gram positive
99%
97%
98%
99%
98 %
gram negative
97%
96%
96%
97%
97 %
- P(sp) - True positive for signal peptide / (all predicted as signal peptide)
- P(lp) - True positive for lipoprotein / (all predicted as lipoprotein)
- Q(sp) - True positive for signal peptide / (number of signal peptide in the database)
- Q(lp) - True positive for lipoprotein / (number of lipoprotein in the database)
- Results obtained applying the prosite regular expression PS00013
 
 

ESCHERICHIA COLI ANALISYS (2160 protein sequences)
 

Predicted    \   Observed 		  Signal Peptide  Non Signal Peptide
Signal Peptide 181 57
Non Signal Peptide 40 1882

Among the 181 correctly predicted as signal peptides
 
RULE USED
TP
TL
FP
FP
 Q3=(TP+TL)/ALL
PROSITE with rules (1) and (2)
144
26
0
11
 93.4 %
PROSITE 
with rule (1)
144
26
0
11
 93.4 %