Search CTL/CD8+ T-Cell Epitope Database

Found 6 matching records:

Displaying record number 58960

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HXB2 Location	Gag(156-173) p24(24-41) DNA(1255..1308)	Gag Epitope Map
Author Location	Gag(156-173)
Epitope	VKVIEEKAFSPEVIPMFT	Epitope Alignment
Epitope Name	Gag 156-173
Subtype	C
Species (MHC/HLA)	human
Immunogen	HIV-1 infection
Patient MHC/HLA	CH131: A*23:01, A*29:01, B*15:03, B*45:01, C*02:02, C*06:02
Country	Malawi
Experimental methods	CD8 T-cell Elispot - IFNγ
Keywords	rate of progression, immunodominance, escape, acute/early infection

Notes

• 17 patients were examined completely for T cell responses to HIV-1 using epitope entropy and T cell selection pressure. Vertical immunodominance profiles were followed using autologous founder virus and subsequent variant sequence peptides. The time taken for HIV-1 to escape T-responses was primarily related to relative immunodominance (39%) and fitness constraints on epitope variability. Escape was slowed by lower average epitope entropy.
• Escape occurred in all subjects within 70 days from Fiebig I/II (50 days for 15/17 subjects). Rapid escape was restricted by a broad range of HLA, not just protective HLA allotypes. Only 14% of epitopes remained invariant throughout the study, 1,187 days from Fiebig stages I/II. Slower escaping epitopes could be restricted by protective HLA, suggesting that slow escape does not equate to low immune pressure.
• Autologous peptide VKVIEEKAFSPEVIPMFT (Gag 156-173), elicited an immunodominant response that persisted and only reached 50% escape from transmitter/founder sequence at 400+ days from Fiebig Stage I/II.

References

Liu2013a Michael K. P. Liu, Natalie Hawkins, Adam J. Ritchie, Vitaly V. Ganusov, Victoria Whale, Simon Brackenridge, Hui Li, Jeffrey W. Pavlicek, Fangping Cai, Melissa Rose-Abrahams, Florette Treurnicht, Peter Hraber, Catherine Riou, Clive Gray, Guido Ferrari, Rachel Tanner, Li-Hua Ping, Jeffrey A. Anderson, Ronald Swanstrom, CHAVI Core B, Myron Cohen, Salim S. Abdool Karim, Barton Haynes, Persephone Borrow, Alan S. Perelson, George M. Shaw, Beatrice H. Hahn, Carolyn Williamson, Bette T. Korber, Feng Gao, Steve Self, Andrew McMichael, and Nilu Goonetilleke. Vertical T Cell Immunodominance and Epitope Entropy Determine HIV-1 Escape. J. Clin. Invest., 123(1):380-393, 2 Jan 2013. PubMed ID: 23221345. Show all entries for this paper.

Displaying record number 59054

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HXB2 Location	Tat(9-26) DNA(5855..5908)	Tat Epitope Map
Author Location	Tat(9-26)
Epitope	DPWNHPGSQPKTACNNCY	Epitope Alignment
Epitope Name	Tat 9-26
Subtype	C
Species (MHC/HLA)	human
Immunogen	HIV-1 infection
Patient MHC/HLA	CH131: A*23:01, A*29:01, B*15:03, B*45:01, C*02:02, C*06:02
Country	Malawi
Experimental methods	CD8 T-cell Elispot - IFNγ
Keywords	rate of progression, acute/early infection

Notes

• 17 patients were examined completely for T cell responses to HIV-1 using epitope entropy and T cell selection pressure. Vertical immunodominance profiles were followed using autologous founder virus and subsequent variant sequence peptides. The time taken for HIV-1 to escape T-responses was primarily related to relative immunodominance (39%) and fitness constraints on epitope variability. Escape was slowed by lower average epitope entropy.
• Escape occurred in all subjects within 70 days from Fiebig I/II (50 days for 15/17 subjects). Rapid escape was restricted by a broad range of HLA, not just protective HLA allotypes. Only 14% of epitopes remained invariant throughout the study, 1,187 days from Fiebig stages I/II. Slower escaping epitopes could be restricted by protective HLA, suggesting that slow escape does not equate to low immune pressure.
• Autologous peptide DPWNHPGSQPKTACNNCY (Tat 9-26), elicited a response that persisted and reached 50% escape from transmitter/founder sequence at 91 days from Fiebig Stage I/II.

References

Liu2013a Michael K. P. Liu, Natalie Hawkins, Adam J. Ritchie, Vitaly V. Ganusov, Victoria Whale, Simon Brackenridge, Hui Li, Jeffrey W. Pavlicek, Fangping Cai, Melissa Rose-Abrahams, Florette Treurnicht, Peter Hraber, Catherine Riou, Clive Gray, Guido Ferrari, Rachel Tanner, Li-Hua Ping, Jeffrey A. Anderson, Ronald Swanstrom, CHAVI Core B, Myron Cohen, Salim S. Abdool Karim, Barton Haynes, Persephone Borrow, Alan S. Perelson, George M. Shaw, Beatrice H. Hahn, Carolyn Williamson, Bette T. Korber, Feng Gao, Steve Self, Andrew McMichael, and Nilu Goonetilleke. Vertical T Cell Immunodominance and Epitope Entropy Determine HIV-1 Escape. J. Clin. Invest., 123(1):380-393, 2 Jan 2013. PubMed ID: 23221345. Show all entries for this paper.

Displaying record number 59055

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HXB2 Location	Tat(38-47) DNA(5942..5971)	Tat Epitope Map
Author Location	Tat(38-47)
Epitope	FQKKGLGISY	Epitope Alignment
		Show epitope variants
Epitope Name	Tat 38-47
Subtype	C
Species (MHC/HLA)	human(B*15:03)
Immunogen	HIV-1 infection
Patient MHC/HLA	CH131: A*23:01, A*29:01, B*15:03, B*45:01, C*02:02, C*06:02
Country	Malawi
Experimental methods	CD8 T-cell Elispot - IFNγ
Keywords	rate of progression, immunodominance, escape, acute/early infection, optimal epitope

Notes

• 17 patients were examined completely for T cell responses to HIV-1 using epitope entropy and T cell selection pressure. Vertical immunodominance profiles were followed using autologous founder virus and subsequent variant sequence peptides. The time taken for HIV-1 to escape T-responses was primarily related to relative immunodominance (39%) and fitness constraints on epitope variability. Escape was slowed by lower average epitope entropy.
• Escape occurred in all subjects within 70 days from Fiebig I/II (50 days for 15/17 subjects). Rapid escape was restricted by a broad range of HLA, not just protective HLA allotypes. Only 14% of epitopes remained invariant throughout the study, 1,187 days from Fiebig stages I/II. Slower escaping epitopes could be restricted by protective HLA, suggesting that slow escape does not equate to low immune pressure.
• Optimal epitope FQKKGLGISY (Tat 38-47) which was part of reactive peptide HCLVCFQKKGLGISYGRK, elicited an immunodominant response and reached 50% escape from transmitter/founder sequence at 91 days from Fiebig Stage I/II. This epitope is restricted by the B*1503 allele which was labeled as non-protective.

References

Liu2013a Michael K. P. Liu, Natalie Hawkins, Adam J. Ritchie, Vitaly V. Ganusov, Victoria Whale, Simon Brackenridge, Hui Li, Jeffrey W. Pavlicek, Fangping Cai, Melissa Rose-Abrahams, Florette Treurnicht, Peter Hraber, Catherine Riou, Clive Gray, Guido Ferrari, Rachel Tanner, Li-Hua Ping, Jeffrey A. Anderson, Ronald Swanstrom, CHAVI Core B, Myron Cohen, Salim S. Abdool Karim, Barton Haynes, Persephone Borrow, Alan S. Perelson, George M. Shaw, Beatrice H. Hahn, Carolyn Williamson, Bette T. Korber, Feng Gao, Steve Self, Andrew McMichael, and Nilu Goonetilleke. Vertical T Cell Immunodominance and Epitope Entropy Determine HIV-1 Escape. J. Clin. Invest., 123(1):380-393, 2 Jan 2013. PubMed ID: 23221345. Show all entries for this paper.

Displaying record number 59057

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HXB2 Location	gp160(34-51) gp120(34-51) DNA(6324..6377)	gp160 Epitope Map
Author Location	Env(34-51)
Epitope	LWVTVYYGVPVWKEAKTT	Epitope Alignment
Epitope Name	Env 34-51
Subtype	C
Species (MHC/HLA)	human
Immunogen	HIV-1 infection
Patient MHC/HLA	CH131: A*23:01, A*29:01, B*15:03, B*45:01, C*02:02, C*06:02
Country	Malawi
Experimental methods	CD8 T-cell Elispot - IFNγ
Keywords	rate of progression, immunodominance, acute/early infection

Notes

• 17 patients were examined completely for T cell responses to HIV-1 using epitope entropy and T cell selection pressure. Vertical immunodominance profiles were followed using autologous founder virus and subsequent variant sequence peptides. The time taken for HIV-1 to escape T-responses was primarily related to relative immunodominance (39%) and fitness constraints on epitope variability. Escape was slowed by lower average epitope entropy.
• Escape occurred in all subjects within 70 days from Fiebig I/II (50 days for 15/17 subjects). Rapid escape was restricted by a broad range of HLA, not just protective HLA allotypes. Only 14% of epitopes remained invariant throughout the study, 1,187 days from Fiebig stages I/II. Slower escaping epitopes could be restricted by protective HLA, suggesting that slow escape does not equate to low immune pressure.
• Autologous peptide LWVTVYYGVPVWKEAKTT (Env 34-51), elicited an immunodominant response that persisted.

References

Liu2013a Michael K. P. Liu, Natalie Hawkins, Adam J. Ritchie, Vitaly V. Ganusov, Victoria Whale, Simon Brackenridge, Hui Li, Jeffrey W. Pavlicek, Fangping Cai, Melissa Rose-Abrahams, Florette Treurnicht, Peter Hraber, Catherine Riou, Clive Gray, Guido Ferrari, Rachel Tanner, Li-Hua Ping, Jeffrey A. Anderson, Ronald Swanstrom, CHAVI Core B, Myron Cohen, Salim S. Abdool Karim, Barton Haynes, Persephone Borrow, Alan S. Perelson, George M. Shaw, Beatrice H. Hahn, Carolyn Williamson, Bette T. Korber, Feng Gao, Steve Self, Andrew McMichael, and Nilu Goonetilleke. Vertical T Cell Immunodominance and Epitope Entropy Determine HIV-1 Escape. J. Clin. Invest., 123(1):380-393, 2 Jan 2013. PubMed ID: 23221345. Show all entries for this paper.

Displaying record number 59056

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HXB2 Location	gp160(709-726) gp41(198-215) DNA(8349..8402)	gp160 Epitope Map
Author Location	Env(709-726)
Epitope	RQGYSPLSFQTLIPNPRG	Epitope Alignment
Epitope Name	Env 709-726
Subtype	C
Species (MHC/HLA)	human
Immunogen	HIV-1 infection
Patient MHC/HLA	CH131: A*23:01, A*29:01, B*15:03, B*45:01, C*02:02, C*06:02
Country	Malawi
Experimental methods	CD8 T-cell Elispot - IFNγ
Keywords	rate of progression, immunodominance, escape, acute/early infection

Notes

• 17 patients were examined completely for T cell responses to HIV-1 using epitope entropy and T cell selection pressure. Vertical immunodominance profiles were followed using autologous founder virus and subsequent variant sequence peptides. The time taken for HIV-1 to escape T-responses was primarily related to relative immunodominance (39%) and fitness constraints on epitope variability. Escape was slowed by lower average epitope entropy.
• Escape occurred in all subjects within 70 days from Fiebig I/II (50 days for 15/17 subjects). Rapid escape was restricted by a broad range of HLA, not just protective HLA allotypes. Only 14% of epitopes remained invariant throughout the study, 1,187 days from Fiebig stages I/II. Slower escaping epitopes could be restricted by protective HLA, suggesting that slow escape does not equate to low immune pressure.
• Autologous peptide RQGYSPLSFQTLIPNPRG (Env 709-726), elicited an immunodominant response that persisted and only reached 50% escape from transmitter/founder sequence at 300+ days from Fiebig Stage I/II. Predicted epitope is SPLSFQTLI.

References

Liu2013a Michael K. P. Liu, Natalie Hawkins, Adam J. Ritchie, Vitaly V. Ganusov, Victoria Whale, Simon Brackenridge, Hui Li, Jeffrey W. Pavlicek, Fangping Cai, Melissa Rose-Abrahams, Florette Treurnicht, Peter Hraber, Catherine Riou, Clive Gray, Guido Ferrari, Rachel Tanner, Li-Hua Ping, Jeffrey A. Anderson, Ronald Swanstrom, CHAVI Core B, Myron Cohen, Salim S. Abdool Karim, Barton Haynes, Persephone Borrow, Alan S. Perelson, George M. Shaw, Beatrice H. Hahn, Carolyn Williamson, Bette T. Korber, Feng Gao, Steve Self, Andrew McMichael, and Nilu Goonetilleke. Vertical T Cell Immunodominance and Epitope Entropy Determine HIV-1 Escape. J. Clin. Invest., 123(1):380-393, 2 Jan 2013. PubMed ID: 23221345. Show all entries for this paper.

Displaying record number 59058

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HXB2 Location	Nef(64-74) DNA(8986..9018)	Nef Epitope Map
Author Location	Nef(64-74)
Epitope	EEVGFPVKPQV	Epitope Alignment
		Show epitope variants
Epitope Name	Nef 64-74
Subtype	C
Species (MHC/HLA)	human(B*45:01)
Immunogen	HIV-1 infection
Patient MHC/HLA	CH131: A*23:01, A*29:01, B*15:03, B*45:01, C*02:02, C*06:02
Country	Malawi
Experimental methods	CD8 T-cell Elispot - IFNγ
Keywords	rate of progression, immunodominance, escape, acute/early infection, optimal epitope

Notes

• 17 patients were examined completely for T cell responses to HIV-1 using epitope entropy and T cell selection pressure. Vertical immunodominance profiles were followed using autologous founder virus and subsequent variant sequence peptides. The time taken for HIV-1 to escape T-responses was primarily related to relative immunodominance (39%) and fitness constraints on epitope variability. Escape was slowed by lower average epitope entropy.
• Escape occurred in all subjects within 70 days from Fiebig I/II (50 days for 15/17 subjects). Rapid escape was restricted by a broad range of HLA, not just protective HLA allotypes. Only 14% of epitopes remained invariant throughout the study, 1,187 days from Fiebig stages I/II. Slower escaping epitopes could be restricted by protective HLA, suggesting that slow escape does not equate to low immune pressure.
• Optimal epitope EEVGFPVKPQV (Nef 64-74) which was part of reactive peptide IEAQEEGEEVGFPVKPQV, elicited an immunodominant response that persisted and reached 50% escape from transmitter/founder sequence at ˜ 30 days from Fiebig Stage I/II. This epitope is restricted by the B*4501 allele which was labeled as non-protective.

References

Liu2013a Michael K. P. Liu, Natalie Hawkins, Adam J. Ritchie, Vitaly V. Ganusov, Victoria Whale, Simon Brackenridge, Hui Li, Jeffrey W. Pavlicek, Fangping Cai, Melissa Rose-Abrahams, Florette Treurnicht, Peter Hraber, Catherine Riou, Clive Gray, Guido Ferrari, Rachel Tanner, Li-Hua Ping, Jeffrey A. Anderson, Ronald Swanstrom, CHAVI Core B, Myron Cohen, Salim S. Abdool Karim, Barton Haynes, Persephone Borrow, Alan S. Perelson, George M. Shaw, Beatrice H. Hahn, Carolyn Williamson, Bette T. Korber, Feng Gao, Steve Self, Andrew McMichael, and Nilu Goonetilleke. Vertical T Cell Immunodominance and Epitope Entropy Determine HIV-1 Escape. J. Clin. Invest., 123(1):380-393, 2 Jan 2013. PubMed ID: 23221345. Show all entries for this paper.