• MHC CLASS-II ALLELE
  • HLA-DRB1*0401
    • SET-I    
    • SET-II    
    • SET-IIIa
    • SET-IIIb
    • SET-IVa
    • SET-IVb
    • SET-Va  
    • SET-Vb  
  
  

Evaluation with Set1: All Non Redundant Peptides form data bases and literature

Algorithm		EVALUATION PARAMETERS
		Threshold Dependent*						Threshold Independent	For Detailed Results
Category	Reference	Sens	Spec	PPV	NPV	Accu	CC	ROC
Motif	Rammennsee et al., 1995	69.16	71.21	83.77	51.88	69.81	0.3790	0.707	[Details]
	Max et al., 1993	55.91	66.56	78.23	41.27	59.29	0.2093	0.649	[Details]
	Sette et al., 1993	52.59	73.37	80.93	41.87	59.19	0.2433	0.650	[Details]
	Hammer et al., 1993	64.12	58.20	76.72	43.02	62.24	0.2100	0.638	[Details]
	Chicz et al., 1993	28.82	82.66	78.12	35.09	45.92	0.1232	0.542	[Details]
Matrix	Marshal et al., 1995	72.19	72.14	84.77	54.69	72.17	0.4183	0.787	[Details]
	Struniolo et al., 1999	73.05	67.49	82.84	53.83	71.29	0.3856	0.777	[Details]
	Hammer et al., 1994	69.45	70.59	83.54	51.82	69.81	0.3762	0.774	[Details]
	Brusic et al., 1998	64.27	65.33	79.93	45.97	64.60	0.2768	0.707	[Details]
	Southwood et al., 1998	66.71	66.25	80.94	48.09	66.57	0.3094	0.700	[Details]
	Borras-Cuesta et al., 2000	61.82	60.37	77.02	42.39	61.36	0.2075	0.664	[Details]
ANN	Brusic et al., 1998	70.75	70.59	83.79	59.90	70.70	0.3894	0.771	[Details]

* The Parameters is calculated at threshold where sensitivity is nearly equal to specificity, only for matrices and ANN.

Evaluation with Set2: Natural Peptides selected form set1

Algorithm		EVALUATION PARAMETERS
		Threshold Dependent*						Threshold Independent	For Detailed Results
Category	Reference	Sens	Spec	PPV	NPV	Accu	CC	ROC
Motif	Rammennsee et al., 1995	64.30	71.92	74.92	60.69	67.61	0.3542	0.704	[Details]
	Max et al., 1993	50.39	67.12	66.67	50.91	57.65	0.1755	0.619	[Details]
	Sette et al., 1993	51.97	70.55	69.72	52.96	60.03	0.2260	0.630	[Details]
	Hammer et al., 1993	63.25	58.22	66.39	54.84	61.07	0.2135	0.621	[Details]
	Chicz et al., 1993	38.85	80.82	72.55	50.32	57.06	0.2121	0.609	[Details]
Matrix	Marshal et al., 1995	67.98	67.47	73.16	61.76	67.76	0.3518	0.753	[Details]
	Struniolo et al., 1999	66.93	67.12	72.55	60.87	67.01	0.3378	0.738	[Details]
	Hammer et al., 1994	65.62	65.75	71.43	59.44	65.65	0.3112	0.743	[Details]
	Brusic et al., 1998	64.57	64.04	70.09	58.07	64.34	0.2838	0.695	[Details]
	Southwood et al., 1998	61.42	61.99	67.83	55.18	61.66	0.2321	0.651	[Details]
	Borras-Cuesta et al., 2000	58.27	60.27	65.68	52.54	59.14	0.1838	0.643	[Details]
ANN	Brusic et al., 1998	65.62	65.75	71.43	49.44	65.68	0.3112	0.685	[Details]

* The Parameters is calculated at threshold where sensitivity is nearly equal to specificity, only for matrices and ANN.

Evaluation with Set3a: Non-homologous Peptides selected form set1

Algorithm		EVALUATION PARAMETERS
		Threshold Dependent*						Threshold Independent	For Detailed Results
Category	Reference	Sens	Spec	PPV	NPV	Accu	CC	ROC
Motif	Rammennsee et al., 1995	60.86	74.64	84.50	52.60	65.93	0.3428	0.681	[Details]
	Max et al., 1993	49.87	68.20	72.94	44.18	56.61	0.1759	0.604	[Details]
	Sette et al., 1993	51.47	70.51	75.00	45.81	58.47	0.2139	0.632	[Details]
	Hammer et al., 1993	62.47	58.53	72.14	47.57	61.02	0.2034	0.605	[Details]
	Chicz et al., 1993	34.85	82.95	77.84	42.55	52.54	0.1906	0.566	[Details]
Matrix	Marshal et al., 1995	69.17	69.12	79.38	56.60	69.15	0.3712	0.753	[Details]
	Struniolo et al., 1999	69.17	68.20	78.90	58.27	68.81	0.3626	0.734	[Details]
	Hammer et al., 1994	67.29	66.36	77.47	54.14	66.95	0.3261	0.737	[Details]
	Brusic et al., 1998	64.08	64.98	75.87	51.27	64.41	0.2808	0.699	[Details]
	Southwood et al., 1998	64.34	63.59	75.24	50.92	64.07	0.2703	0.677	[Details]
	Borras-Cuesta et al., 2000	62.47	63.59	74.68	49.64	62.88	0.2518	0.685	[Details]
ANN	Brusic et al., 1998	64.61	64.98	76.03	51.65	64.75	0.2861	0.693	[Details]

* The Parameters is calculated at threshold where sensitivity is nearly equal to specificity, only for matrices and ANN.

Evaluation with Set3b: Non-homologous Peptides selected form set2

Algorithm		EVALUATION PARAMETERS
		Threshold Dependent*						Threshold Independent	For Detailed Results
Category	Reference	Sens	Spec	PPV	NPV	Accu	CC	ROC
Motif	Rammennsee et al., 1995	60.57	73.15	74.45	58.96	66.09	0.3356	----1	[Details]
	Max et al., 1993	50.90	68.52	67.62	51.93	58.59	0.1948	0.628	[Details]
	Sette et al., 1993	53.41	70.37	69.95	53.90	60.81	0.2381	0.655	[Details]
	Hammer et al., 1993	68.87	57.41	66.30	55.86	61.62	0.2222	0.616	[Details]
	Chicz et al., 1993	39.78	82.41	74.50	51.45	58.38	0.2399	0.622	[Details]
Matrix	Marshal et al., 1995	68.46	68.98	74.03	62.87	68.69	0.3717	0.761	[Details]
	Struniolo et al., 1999	67.03	67.59	72.76	61.34	67.27	0.3436	0.751	[Details]
	Hammer et al., 1994	67.74	65.74	71.86	61.21	66.87	0.3328	0.751	[Details]
	Brusic et al., 1998	63.44	64.35	69.69	57.68	63.84	0.2758	0.711	[Details]
	Southwood et al., 1998	63.44	63.43	69.14	57.32	63.43	0.2666	0.684	[Details]
	Borras-Cuesta et al., 2000	60.57	61.57	67.06	54.73	61.01	0.2197	0.657	[Details]
ANN	Brusic et al., 1998	65.59	65.74	71.21	59.66	65.66	0.3110	0.713	[Details]

* The Parameters is calculated at threshold where sensitivity is nearly equal to specificity, only for matrices and ANN.

Evaluation with Set4a: Randomly selected equal number of HLA-DRB1*0401 binders and non-binders form set1

Algorithm		EVALUATION PARAMETERS
		Threshold Dependent*						Threshold Independent	For Detailed Results
Category	Reference	Sens	Spec	PPV	NPV	Accu	CC	ROC
Motif	Rammennsee et al., 1995	69.66	71.21	70.75	70.12	70.43	0.4087	0.711	[Details]
	Max et al., 1993	54.18	66.56	61.84	59.23	60.37	0.2090	0.637	[Details]
	Sette et al., 1993	47.37	73.37	64.02	58.23	60.37	0.2148	0.624	[Details]
	Hammer et al., 1993	64.40	58.20	60.64	62.05	61.30	0.2264	0.633	[Details]
	Chicz et al., 1993	28.48	82.66	62.16	53.61	55.57	0.1326	0.535	[Details]
Matrix	Marshal et al., 1995	71.21	71.21	71.21	71.21	71.21	0.4241	0.778	[Details]
	Struniolo et al., 1999	71.52	67.49	68.75	70.32	69.50	0.3904	0.764	[Details]
	Hammer et al., 1994	66.25	68.42	67.72	66.97	67.34	0.3468	0.760	[Details]
	Brusic et al., 1998	66.25	65.94	66.05	66.15	66.10	0.3220	0.711	[Details]
	Southwood et al., 1998	64.71	64.71	64.71	64.71	64.71	0.2941	0.680	[Details]
	Borras-Cuesta et al., 2000	58.82	60.37	59.75	59.45	59.60	0.1920	0.653	[Details]
ANN	Brusic et al., 1998	70.28	69.97	70.06	70.19	70.12	0.4025	0.724	[Details]

* The Parameters is calculated at threshold where sensitivity is nearly equal to specificity, only for matrices and ANN.

Evaluation with Set4b: Randomly selected equal number of HLA-DRB1*0401 binders and non-binders form set2

Algorithm		EVALUATION PARAMETERS
		Threshold Dependent*						Threshold Independent	For Detailed Results
Category	Reference	Sens	Spec	PPV	NPV	Accu	CC	ROC
Motif	Rammennsee et al., 1995	68.15	71.92	70.82	69.31	70.03	0.4010	-----	[Details]
	Max et al., 1993	51.03	67.12	60.82	57.82	59.08	0.1839	0.619	[Details]
	Sette et al., 1993	52.40	70.55	64.02	59.71	61.47	0.2333	0.633	[Details]
	Hammer et al., 1993	62.33	58.22	59.87	60.71	60.27	0.2057	0.617	[Details]
	Chicz et al., 1993	38.70	80.82	66.86	56.87	59.76	0.2152	0.608	[Details]
Matrix	Marshal et al., 1995	68.15	68.84	68.62	68.37	68.49	0.3699	0.767	[Details]
	Struniolo et al., 1999	67.47	67.81	67.70	67.58	67.64	0.3527	0.751	[Details]
	Hammer et al., 1994	66.78	65.78	66.10	66.44	66.27	0.3254	0.751	[Details]
	Brusic et al., 1998	63.70	64.04	63.92	63.82	63.87	0.2774	0.692	[Details]
	Southwood et al., 1998	63.36	63.70	63.57	63.48	63.50	0.2705	0.661	[Details]
	Borras-Cuesta et al., 2000	59.59	57.53	58.39	58.74	58.56	0.1713	0.649	[Details]
ANN	Brusic et al., 1998	64.04	64.38	64.26	64.16	64.21	0.2842	0.672	[Details]

* The Parameters is calculated at threshold where sensitivity is nearly equal to specificity, only for matrices and ANN.

Evaluation with Set5a: Recent Ligands selected accroding to set1 criteion

Algorithm		EVALUATION PARAMETERS
		Threshold Dependent*						Threshold Independent	For Detailed Results
Category	Reference	Sens	Spec	PPV	NPV	Accu	CC	ROC
Motif	Rammennsee et al., 1995	55.71	61.70	68.42	48.33	58.12	0.1708	0.601	[Details]
	Max et al., 1993	47.14	63.83	66.00	44.78	53.85	0.1087	0.607	[Details]
	Sette et al., 1993	21.43	78.72	60.00	40.22	44.44	0.0018	0.551	[Details]
	Hammer et al., 1993	58.57	51.06	64.06	45.28	55.56	0.0949	0.537	[Details]
	Chicz et al., 1993	14.29	91.49	71.43	41.75	45.30	0.0872	0.466	[Details]
Matrix	Marshal et al., 1995	65.71	59.67	70.77	53.85	63.25	0.2495	0.662	[Details]
	Struniolo et al., 1999	67.14	55.32	69.12	53.06	62.39	0.2232	0.670	[Details]
	Hammer et al., 1994	61.43	46.81	63.24	44.90	55.56	0.0819	0.658	[Details]
	Brusic et al., 1998	60.00	61.70	70.00	50.88	60.68	0.2129	0.603	[Details]
	Southwood et al., 1998	60.00	53.19	65.62	47.17	57.26	0.1299	0.585	[Details]
	Borras-Cuesta et al., 2000	42.86	48.94	55.56	36.51	45.30	0.0000	0.421	[Details]
ANN	Brusic et al., 1998	61.43	72.34	76.79	55.74	65.81	0.3314	0.695	[Details]

* The Parameters is calculated at threshold where sensitivity is nearly equal to specificity, only for matrices and ANN.

Evaluation with Set5b: Recent Ligands selected accroding to set2 criteion

Algorithm		EVALUATION PARAMETERS
		Threshold Dependent*						Threshold Independent	For Detailed Results
Category	Reference	Sens	Spec	PPV	NPV	Accu	CC	ROC
Motif	Rammennsee et al., 1995	66.67	40.54	59.26	48.39	55.29	0.0742	-*---	[Details]
	Max et al., 1993	25.00	81.08	63.16	45.45	49.41	0.0724	0.621	[Details]
	Sette et al., 1993	31.25	72.97	60.00	45.00	49.41	0.0460	0.568	[Details]
	Hammer et al., 1993	41.67	64.86	60.61	46.15	51.76	0.0664	0.512	[Details]
	Chicz et al., 1993	20.83	89.19	71.43	46.48	50.59	0.1340	0.533	[Details]
Matrix	Marshal et al., 1995	62.50	72.97	75.00	60.50	67.06	0.3524	0.706	[Details]
	Struniolo et al., 1999	60.42	59.46	65.91	53.66	60.00	0.1972	0.677	[Details]
	Hammer et al., 1994	50.00	56.76	60.00	46.67	52.94	0.0671	0.619	[Details]
	Brusic et al., 1998	60.42	56.76	64.44	52.50	58.82	0.1706	0.626	[Details]
	Southwood et al., 1998	50.00	59.46	61.54	47.83	54.12	0.0941	0.691	[Details]
	Borras-Cuesta et al., 2000	56.25	40.54	55.10	41.67	49.41	0.0000	0.439	[Details]
ANN	Brusic et al., 1998	60.42	67.57	70.73	56.82	63.53	0.2777	0.714	[Details]

* The Parameters is calculated at threshold where sensitivity is nearly equal to specificity, only for matrices and ANN.