Program | Reference | Analytical method | CoBaltDB features prediction group(s) | |||
---|---|---|---|---|---|---|
LipPred | [133] | Naive Bayesian Network | LIPO | Â | Â | Â |
PRED-LIPO | [58] | HMM | LIPO | Â | (only Monoderm) | Â |
SPEPLip | [134] | NN | LIPO | SEC | Â | Â |
SecretomeP | [135] | Pattern & NN |  | ΔSEC_SP |  |  |
Signal-3L | [136] | Multi-modules | Â | SEC | Â | Â |
Signal-CF | [137] | Multi-modules | Â | SEC | Â | Â |
Signal-Blast | [138] | BlastP | Â | SEC | Â | Â |
Sigcleave | EMBOSS | Von Heijne method | Â | SEC | Â | Â |
PRED-SIGNAL | [129] | HMM | Â | SEC | (only Archae) | Â |
Flafind | [139] | AA features | Â | T3SS Archae + T4SS Bacteria | Â | Â |
T3SS_prediction | [110] | SVM & NN | Â | T3SS | Â | Â |
EffectiveT3 | [111] | Machine learning | Â | T3SS | Â | Â |
NtraC Signal Analysis | [140] | Pattern model | Â | SEC (long SP) | Â | Â |
Philius | [141] | HMM |  | SEC | αTMB |  |
(SP)OCTOPUS | Blast Homology, NN, HMM |  | SEC | αTMB |  | |
MemBrain | [144] | Machine learning |  | SEC | αTMB |  |
DAS | [145] | Dense Alignment Surface |  |  | αTMB |  |
HMM-TM | [146] | HMM |  |  | αTMB |  |
SVMtop Server 1.0 | [147] | SVM |  |  | αTMB |  |
UMDHMM_TMHP | [148] | HMM |  |  | αTMB |  |
waveTM | [149] | Hydropathy signals algorithm |  |  | αTMB |  |
PRED-TMR | [150] | AA features |  |  | αTMB |  |
TMAP | [67] | AA features |  |  | αTMB |  |
igTM | [151] | Grammatical Inference |  |  | αTMB |  |
TOPCONS | [152] | Tools Consensus |  |  | αTMB |  |
TUPS | [153] | Tools Consensus |  |  | αTMB |  |
ConPred II | [154] | Tools Consensus |  |  | αTMB |  |
MEMSAT3 | NN |  |  | αTMB |  | |
SABLE | [156] | NN |  |  | αTMB |  |
TM-Pro | AA features |  |  | αTMB |  | |
ProspRef | _ | Knowledge-based method |  |  | αTMB |  |
PSIPRED | NN, PSSM |  |  | αTMB |  | |
NPS@ | [160] | Tools Consensus |  |  | αTMB |  |
SAM-T08 | [161] | HMM |  |  | αTMB |  |
PORTER | [162] | NN |  |  | αTMB |  |
TMPred | EMBnet | Weight-matrices |  |  | αTMB |  |
TMMOD | [163] | HMM |  |  | αTMB |  |
TopPred II | [61] | G. von Heijne algorithm |  |  | αTMB |  |
YASPIN | [164] | Hidden Neural Network |  |  | αTMB |  |
MemType-2L | [165] | PseudoPSSM, classifier | Â | Â | Membrane Type | Â |
BOMP | [84] | AA features |  |  |  | βBarrel |
TMBETADISC-RBF | [87] | RBF network, PSSM |  |  |  | βBarrel |
TMBETA-NET | [117] | AA features |  |  |  | βBarrel |
PRED-TMBB | [85] | HMM |  |  |  | βBarrel |
ConBBPred | [76] | Tools Consensus |  |  |  | βBarrel |
CW-PRED (submit) | [126] | HMM | Â | Cell-Wall (only Monoderm) | Â | Â |
ProtCompB | SoftBerry | Multi-methods | Localization | Â | Â | Â |
CELLO | [166] | SVM | Localization | Â | Â | Â |
PSL101 | [167] | SVM, structure homology | Localization | Â | Â | Â |
PSLpred | [168] | SVM | Localization | Â | Â | Â |
GPLoc-neg | [169] | Basic classifier | Localization | Â | (only Diderm) | Â |
GPLoc-pos | [170] | Basic classifier | Localization | Â | (only Monoderm) | Â |
LOCtree | [171] | SVM | Localization | Â | Â | Â |
PSORTb | [91] | Multi-modules | Localization | Â | Â | Â |
SLPS | [172] | Nearest Neighbor on domain | Localization | Â | Â | Â |
Couple-subloc v1.0 | Jian Guo | AA features | Localization | Â | Â | Â |
TBPRED | [173] | SVM | Localization | Â | (only Mycobacterium) | Â |