Table 5 Comparison of experimentally-defined and predicted 15-mer HLA class II-binding peptides for three DRB1 alleles
Performance algorithm | DRB1*0101 (DR1) | DRB1*1501 (DR2) | DRB1*0401 (DR4) | ||||||
|---|---|---|---|---|---|---|---|---|---|
Mtb32A | Mtb39A | Mtb72F | Mtb32A | Mtb39A | Mtb72F | Mtb32A | Mtb39A | Mtb72F | |
INAFSVGSGQTYGVD | VNEAEYGEMWAQDAA | LSQDRFADFPALPLD | MLKGFAPAAAAQAVQ | LNGLIQFDAAIQPGD | TAYGLTVPPPVIAEN | ||||
GSGQTYGVDVVGYDR | AYETAYGLTVPPPVI | DRFADFPALPLDPSA | KTVSPHRSPISNMVS | NFQLSQGGQGFAIPI | VVWGLTVGSWIGSSA | ||||
ATDINAFSVGSGQTY | AEYGEMWAQDAAAMF | APAQAAPPALSQDRFa | MSSLGSSLGSSGLGG | LNGHHPGDVISVTWQ | GLTVGSWIGSSAGLM | ||||
YDRTQDVAVLQLRGA | GEMWAQDAAAMFGYA | SSAGLMVAAASPYVA | LTNNHVIAGATDINA | GVAANLGRAASVGSL | |||||
VAVLQLRGAGGLPSA | AAAAYETAYGLTVPP | QTYGVDVVGYDRTQD | ANLGRAASVGSLSVP | ||||||
GGQGGTPRAVPGRVV | ASVGSLSVPQAWAAA | VPGRVVALGQTVQAS | AAAAYETAYGLTVPP | ||||||
QTYGVDVVGYDRTQD | VVWGLTVGSWIGSSA | IPIGQAMAIAGQIRS | ASAFQSVVWGLTVGS | ||||||
FSVGSGQTYGVDVVG | VRVAAAAYETAYGLT | NGARVQRVVGSAPAA | VTPAARALPLTSLTS | ||||||
IPIGQAMAIAGQIRS | AIAVNEAEYGEMWAQ | INAFSVGSGQTYGVD | LMILIATNLLGQNTP | ||||||
MLKGFAPAAAAQAVQ | RVQRVVGSAPAASLG | VAAASPYVAWMSVTA | |||||||
AENRAELMILIATNL | AGQIRSGGGSPTVHI | ASPYVAWMSVTAGQA | |||||||
ASAFQSVVWGLTVGS | GSGQTYGVDVVGYDR | VGSWIGSSAGLMVAA | |||||||
FSAASAFQSVVWGLT | LQLRGAGGLPSAAIG | AENRAELMILIATNL | |||||||
SSAGLMVAAASPYVA | IAGATDINAFSVGSG | SASLVAAAQMWDSVA | |||||||
RVVALGQTVQASDSL | SSAGLMVAAASPYVA | ||||||||
YDRTQDVAVLQLRGA | LPPEINSARMYAGPG | ||||||||
FSVGSGQTYGVDVVG | GQAELTAAQVRVAAA | ||||||||
RVVGSAPAASLGIST | MLKGFAPAAAAQAVQ | ||||||||
VAVLQLRGAGGLPSA | AAQVRVAAAAYETAY | ||||||||
GFAIPIGQAMAIAGQ | YVAWMSVTAGQAELT | ||||||||
GVDVVGYDRTQDVAV | DAAAMFGYAAATATA | ||||||||
ATDINAFSVGSGQTY | PSSKLGGLWKTVSPH | ||||||||
PLDPSAMVAQVGPQV | VTAGQAELTAAQVRV | ||||||||
TQDVAVLQLRGAGGL | AVQTAAQNGVRAMSS | ||||||||
GGTPRAVPGRVVALG | LIATNLLGQNTPAIA | ||||||||
NHVIAGATDINAFSV | GEMWAQDAAAMFGYA | ||||||||
GGGSPTVHIGPTAFL | MYAGPGSASLVAAAQ | ||||||||
GTGIVIDPNGVVLTN | VRVAAAAYETAYGLT | ||||||||
RWSWLLSVLAAVGLGa | FSAASAFQSVVWGLT | ||||||||
AIAVNEAEYGEMWAQ | |||||||||
AYETAYGLTVPPPVI | |||||||||
ASVGSLSVPQAWAAA | |||||||||
Total binders determined in vitro | 9 | 14 | 23 | 3 | 4 | 6 | 29 | 32 | 60 |
Total non-bindersb | 106 | 113 | 202 | 112 | 123 | 219 | 86 | 95 | 165 |
True predicted binders (TP) | 5 | 12 | 17 | 0 | 2 | 2 | 4 | 13 | 17 |
True predicted non-binders (TN) | 45 | 28 | 68 | 102 | 108 | 197 | 77 | 70 | 134 |
Sensitivity prediction algorithm | 55 % | 86 % | 74 % | 0 % | 50 % | 33 % | 14 % | 41 % | 28 % |
Specificity prediction algorithm | 42 % | 25 % | 34 % | 91 % | 88 % | 90 % | 90 % | 74 % | 81 % |