Search CTL/CD8+ T-Cell Epitope Database

Found 9 matching records:

Displaying record number 59377

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HXB2 Location	Gag(21-29) p17(21-29) DNA(850..876)	Gag Epitope Map
Author Location
Epitope	LRPGGKKKY	Epitope Alignment
Species (MHC/HLA)	human(C*06:02)
Immunogen	HIV-1 infection
Patient MHC/HLA	P08: A*01:01, B*37:01, B*44:02, C*05:01, C*06:02
Country	Germany
Experimental methods	CD8 T-cell Elispot - IFNγ
Keywords	computational epitope prediction, optimal epitope

Notes

• Peptides of 15-20 amino acids were used to compare epitopes determined experimentally versus predictions from 3 epitope prediction tools: SYFPEITHI, CTLPRED, and IEDB. The IEDB tool performed best, but none of the tools performed well. Predictions were better when the HLA restriction of the peptide was known, and when the restricting HLA was present at high frequency in the population.
• LRPGGKKKY was an optimal epitope experimentally mapped from the input peptide LRPGGKKKYKLKHIV.

References

Roider2014 Julia Roider, Tim Meissner, Franziska Kraut, Thomas Vollbrecht, Renate Stirner, Johannes R. Bogner, and Rika Draenert. Comparison of Experimental Fine-Mapping to In Silico Prediction Results of HIV-1 Epitopes Reveals Ongoing Need for Mapping Experiments. Immunology, 143(2):193-201, Oct 2014. PubMed ID: 24724694. Show all entries for this paper.

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Displaying record number 59378

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HXB2 Location	Gag(93-101) p17(93-101) DNA(1066..1092)	Gag Epitope Map
Author Location
Epitope	DVKDTKEAL	Epitope Alignment
Species (MHC/HLA)	human(B*08:01)
Immunogen	HIV-1 infection
Patient MHC/HLA	C02: A*02:01, A*32:01, B*08:01, B*18:01, C*07:01
Country	Germany
Experimental methods	CD8 T-cell Elispot - IFNγ
Keywords	computational epitope prediction, optimal epitope

Notes

• Peptides of 15-20 amino acids were used to compare epitopes determined experimentally versus predictions from 3 epitope prediction tools: SYFPEITHI, CTLPRED, and IEDB. The IEDB tool performed best, but none of the tools performed well. Predictions were better when the HLA restriction of the peptide was known, and when the restricting HLA was present at high frequency in the population.
• DVKDTKEAL was an optimal epitope experimentally mapped from the input peptide RIDVKDTKEALEKIE.

References

Roider2014 Julia Roider, Tim Meissner, Franziska Kraut, Thomas Vollbrecht, Renate Stirner, Johannes R. Bogner, and Rika Draenert. Comparison of Experimental Fine-Mapping to In Silico Prediction Results of HIV-1 Epitopes Reveals Ongoing Need for Mapping Experiments. Immunology, 143(2):193-201, Oct 2014. PubMed ID: 24724694. Show all entries for this paper.

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Displaying record number 59376

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HXB2 Location	Pol(197-205) RT(42-50) DNA(2673..2699)	Pol Epitope Map
Author Location
Epitope	EKEGKISKI	Epitope Alignment
Species (MHC/HLA)	human(B*49:01)
Immunogen	HIV-1 infection
Patient MHC/HLA	T06: A*01:01, A*30:04, B*08:01, B*49:01, C*07:01
Country	Germany
Experimental methods	CD8 T-cell Elispot - IFNγ
Keywords	computational epitope prediction, optimal epitope

Notes

• Peptides of 15-20 amino acids were used to compare epitopes determined experimentally versus predictions from 3 epitope prediction tools: SYFPEITHI, CTLPRED, and IEDB. The IEDB tool performed best, but none of the tools performed well. Predictions were better when the HLA restriction of the peptide was known, and when the restricting HLA was present at high frequency in the population.
• EKEGKISKI was an optimal epitope experimentally mapped from the input peptide LVEICTEMEKEGKISKI.

References

Roider2014 Julia Roider, Tim Meissner, Franziska Kraut, Thomas Vollbrecht, Renate Stirner, Johannes R. Bogner, and Rika Draenert. Comparison of Experimental Fine-Mapping to In Silico Prediction Results of HIV-1 Epitopes Reveals Ongoing Need for Mapping Experiments. Immunology, 143(2):193-201, Oct 2014. PubMed ID: 24724694. Show all entries for this paper.

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Displaying record number 59370

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HXB2 Location	Pol(334-344) RT(179-189) DNA(3084..3116)	Pol Epitope Map
Author Location
Epitope	VIYQYMDDLYV	Epitope Alignment
Epitope Name	VV11
Species (MHC/HLA)	human(A*02:01)
Immunogen	HIV-1 infection
Patient MHC/HLA	T31: A*02:01, A*02:02, B*35:01, B*49:01, C*04:01, C*07:01
Country	Germany
Experimental methods	CD8 T-cell Elispot - IFNγ
Keywords	computational epitope prediction, optimal epitope

Notes

• Peptides of 15-20 amino acids were used to compare epitopes determined experimentally versus predictions from 3 epitope prediction tools: SYFPEITHI, CTLPRED, and IEDB. The IEDB tool performed best, but none of the tools performed well. Predictions were better when the HLA restriction of the peptide was known, and when the restricting HLA was present at high frequency in the population.
• VIYQYMDDLYV was an optimal epitope experimentally mapped from the input peptide RKQNPDIVIYQYMDDLYV.
• Two overlapping A*0201-restricted epitopes were defined by truncation analysis: VIYQYMDDLYV and YQYMDDLYV.

References

Roider2014 Julia Roider, Tim Meissner, Franziska Kraut, Thomas Vollbrecht, Renate Stirner, Johannes R. Bogner, and Rika Draenert. Comparison of Experimental Fine-Mapping to In Silico Prediction Results of HIV-1 Epitopes Reveals Ongoing Need for Mapping Experiments. Immunology, 143(2):193-201, Oct 2014. PubMed ID: 24724694. Show all entries for this paper.

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Displaying record number 59371

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HXB2 Location	Pol(336-344) RT(181-189) DNA(3090..3116)	Pol Epitope Map
Author Location
Epitope	YQYMDDLYV	Epitope Alignment
Epitope Name	YV9
Species (MHC/HLA)	human(A*02:01)
Immunogen	HIV-1 infection
Patient MHC/HLA	T32: A*02:01, A*25:01, B*44:02, C*05:01, C*07:04
Country	Germany
Experimental methods	CD8 T-cell Elispot - IFNγ
Keywords	computational epitope prediction, optimal epitope

Notes

• Peptides of 15-20 amino acids were used to compare epitopes determined experimentally versus predictions from 3 epitope prediction tools: SYFPEITHI, CTLPRED, and IEDB. The IEDB tool performed best, but none of the tools performed well. Predictions were better when the HLA restriction of the peptide was known, and when the restricting HLA was present at high frequency in the population.
• YQYMDDLYV was an epitope mapped from the input peptide RKQNPDIVIYQYMDDLYV.
• Two overlapping A*0201-restricted epitopes were defined by truncation analysis as optimal epitopes: VIYQYMDDLYV and YQYMDDLYV.

References

Roider2014 Julia Roider, Tim Meissner, Franziska Kraut, Thomas Vollbrecht, Renate Stirner, Johannes R. Bogner, and Rika Draenert. Comparison of Experimental Fine-Mapping to In Silico Prediction Results of HIV-1 Epitopes Reveals Ongoing Need for Mapping Experiments. Immunology, 143(2):193-201, Oct 2014. PubMed ID: 24724694. Show all entries for this paper.

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Displaying record number 59372

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HXB2 Location	Pol(706-715) RT(551-560) DNA(4200..4229)	Pol Epitope Map
Author Location
Epitope	LVSAGIRKVL	Epitope Alignment
Species (MHC/HLA)	human(C*06:02)
Immunogen	HIV-1 infection
Patient MHC/HLA	P08: A*01:01, B*37:01, B*44:02, C*05:01, C*06:02
Country	Germany
Experimental methods	CD8 T-cell Elispot - IFNγ
Keywords	computational epitope prediction, optimal epitope

Notes

• Peptides of 15-20 amino acids were used to compare epitopes determined experimentally versus predictions from 3 epitope prediction tools: SYFPEITHI, CTLPRED, and IEDB. The IEDB tool performed best, but none of the tools performed well. Predictions were better when the HLA restriction of the peptide was known, and when the restricting HLA was present at high frequency in the population.
• LVSAGIRKVL was an optimal epitope experimentally mapped from the input peptide QVDKLVSAGIRKVLFL.

References

Roider2014 Julia Roider, Tim Meissner, Franziska Kraut, Thomas Vollbrecht, Renate Stirner, Johannes R. Bogner, and Rika Draenert. Comparison of Experimental Fine-Mapping to In Silico Prediction Results of HIV-1 Epitopes Reveals Ongoing Need for Mapping Experiments. Immunology, 143(2):193-201, Oct 2014. PubMed ID: 24724694. Show all entries for this paper.

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Displaying record number 59374

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HXB2 Location	Nef(74-81) DNA(9016..9039)	Nef Epitope Map
Author Location
Epitope	VPLRPMTY	Epitope Alignment
Epitope Name	VY8
Species (MHC/HLA)	human(B*35:01)
Immunogen	HIV-1 infection
Patient MHC/HLA	P05: A*24:02, A*31:01, B*35:01, B*35:08, C*04:01
Country	Germany
Experimental methods	CD8 T-cell Elispot - IFNγ
Keywords	computational epitope prediction, optimal epitope

Notes

• Peptides of 15-20 amino acids were used to compare epitopes determined experimentally versus predictions from 3 epitope prediction tools: SYFPEITHI, CTLPRED, and IEDB. The IEDB tool performed best, but none of the tools performed well. Predictions were better when the HLA restriction of the peptide was known, and when the restricting HLA was present at high frequency in the population.
• VPLRPMTY was an optimal epitope experimentally mapped from the input peptide EEEEVGFPVTPQVPLRPMTY.

References

Roider2014 Julia Roider, Tim Meissner, Franziska Kraut, Thomas Vollbrecht, Renate Stirner, Johannes R. Bogner, and Rika Draenert. Comparison of Experimental Fine-Mapping to In Silico Prediction Results of HIV-1 Epitopes Reveals Ongoing Need for Mapping Experiments. Immunology, 143(2):193-201, Oct 2014. PubMed ID: 24724694. Show all entries for this paper.

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Displaying record number 59375

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HXB2 Location	Nef(134-141) DNA(9196..9219)	Nef Epitope Map
Author Location
Epitope	RYPLTFGW	Epitope Alignment
Epitope Name	RW8
Species (MHC/HLA)	human(A*24:02)
Immunogen	HIV-1 infection
Patient MHC/HLA	P07: A*24:02, A*68:01, B*18:01, B*35:01, C*07:01, C*07:04
Country	Germany
Experimental methods	CD8 T-cell Elispot - IFNγ
Keywords	computational epitope prediction, optimal epitope

Notes

• Peptides of 15-20 amino acids were used to compare epitopes determined experimentally versus predictions from 3 epitope prediction tools: SYFPEITHI, CTLPRED, and IEDB. The IEDB tool performed best, but none of the tools performed well. Predictions were better when the HLA restriction of the peptide was known, and when the restricting HLA was present at high frequency in the population.
• RYPLTFGW was an optimal epitope experimentally mapped from the input peptide PDWQNYTPGPGVRYPLTFGW.

References

Roider2014 Julia Roider, Tim Meissner, Franziska Kraut, Thomas Vollbrecht, Renate Stirner, Johannes R. Bogner, and Rika Draenert. Comparison of Experimental Fine-Mapping to In Silico Prediction Results of HIV-1 Epitopes Reveals Ongoing Need for Mapping Experiments. Immunology, 143(2):193-201, Oct 2014. PubMed ID: 24724694. Show all entries for this paper.

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Displaying record number 59373

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HXB2 Location	Nef(187-195) DNA(9355..9381)	Nef Epitope Map
Author Location
Epitope	SRLAFNHMA	Epitope Alignment
Species (MHC/HLA)	human(B*39:01)
Immunogen	HIV-1 infection
Patient MHC/HLA	P02: A*03:01, A*25:01, B*35:01, B*39:01, C*04:01, C*12:03
Country	Germany
Experimental methods	CD8 T-cell Elispot - IFNγ
Keywords	computational epitope prediction, optimal epitope

Notes

• Peptides of 15-20 amino acids were used to compare epitopes determined experimentally versus predictions from 3 epitope prediction tools: SYFPEITHI, CTLPRED, and IEDB. The IEDB tool performed best, but none of the tools performed well. Predictions were better when the HLA restriction of the peptide was known, and when the restricting HLA was present at high frequency in the population.
• SRLAFNHMA was an optimal epitope experimentally mapped from the input peptide EWRFDSRLAFNHMARELHPE.

References

Roider2014 Julia Roider, Tim Meissner, Franziska Kraut, Thomas Vollbrecht, Renate Stirner, Johannes R. Bogner, and Rika Draenert. Comparison of Experimental Fine-Mapping to In Silico Prediction Results of HIV-1 Epitopes Reveals Ongoing Need for Mapping Experiments. Immunology, 143(2):193-201, Oct 2014. PubMed ID: 24724694. Show all entries for this paper.

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