From: Integrated siRNA design based on surveying of features associated with high RNAi effectiveness
Design Program | Institution/Company | #Predicted effective siRNAs | #Predicted ineffective siRNAs | Sensitivity | Specificity | PPV (%) |
---|---|---|---|---|---|---|
Ambion siRNA Target Finder | Ambion, Inc. | 144 | 80 | 0.645 | 0.362 | 74.3 |
Jack Lin's siRNA Sequence Finder | Cold Spring Harbor Laboratory | 44 | 180 | 0.229 | 0.897 | 86.4 |
siDESIGN Center | Dharmacon, Inc. | 7 | 217 | 0.036 | 0.983 | 85.7 |
siRNA Target Finder | GenScript Corp. | 6 | 218 | 0.024 | 0.966 | 66.7 |
Imgenex sirna Designer | Imgenex Corp. | 24 | 200 | 0.114 | 0.914 | 79.2 |
EMBOSS sirna | Institute Pasteur | 180 | 44 | 0.801 | 0.190 | 73.8 |
IDT RNAi Design (SciTools) | Integrated DNA Technologies, Inc. | 4 | 220 | 0.012 | 0.966 | 50.0 |
BLOCK-iT RNAi Designer | Invitrogen Corp. | 2 | 222 | 0.012 | 1.000 | 100 |
siSearch | Karolinska Institutet | 0 | 224 | N/A | N/A | N/A |
SiMAX | MWG-Biotech, Inc. | 48 | 176 | 0.235 | 0.845 | 81.3 |
BIOPREDsi | Novartis Institutes for BioMedical Research | 4 | 220 | 0.018 | 0.983 | 75.0 |
Promega siRNA Target Designer | Promega Corp. | 26 | 198 | 0.127 | 0.914 | 80.8 |
QIAGEN siRNA Design Tool | QIAGEN, Inc. | 33 | 191 | 0.151 | 0.862 | 75.8 |
SDS/MPI | University of Hong Kong | 151 | 73 | 0.663 | 0.293 | 72.8 |
WI siRNA Selection Program | Whitehead Institute | 12 | 212 | 0.072 | 1.000 | 100 |
DRM RS 0.951 | Â | 1 | 223 | 0.006 | 1 | 100 |
DRM RS 0.895 | Â | 4 | 220 | 0.024 | 1 | 100 |
DRM RS 0.845 | Â | 5 | 219 | 0.030 | 1 | 100 |
DRM RS 0.827 | Â | 9 | 215 | 0.048 | 0.983 | 88.9 |