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Found 12 matching records:

Displaying record number 59229

HXB2 Location  Gag(77-85)   Gag Epitope Map
View variants at this location
Epitope SLFNTVATL   Epitope Alignment
Variants
SLFNTVAAL   diminished response
SLFNTVATP   diminished response
SLFSTVATL   observed variant
SLFNTIATL   susceptible form
SLYNTVATL   susceptible form
Species (MHC/HLA human(A*02:01)

Variant Details

Showing all: 5 variant(s).


Variant ID.  3368
Epitope Seq.  SLFNTVATL
Variant Seq.  SLFNTVAAL
Mutations T/A
Epitope Location T8A
HXB2 Location T84A
Mutation Type DR: diminished response
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note First variant to arise; seen only in early post-seroconversion period; Elispot response <100 SFC/106PBMC.


Variant ID.  3369
Epitope Seq.  SLFNTVATL
Variant Seq.  SLFNTVATP
Mutations L/P
Epitope Location L9P
HXB2 Location L85P
Mutation Type DR: diminished response
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Second variant to arise; seen only in early post-seroconversion period; Elispot response <50 SFC/106PBMC.


Variant ID.  3370
Epitope Seq.  SLFNTVATL
Variant Seq.  SLFSTVATL
Mutations N/S
Epitope Location N4S
HXB2 Location N80S
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Third variant to arise; seen only in early post-seroconversion period; zero Elispot response.


Variant ID.  3371
Epitope Seq.  SLFNTVATL
Variant Seq.  SLFNTIATL
Mutations V/I
Epitope Location V6I
HXB2 Location V82I
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Fourth variant to arise; seen only in late post-seroconversion period; Elispot response <100 SFC/106PBMC.


Variant ID.  3372
Epitope Seq.  SLFNTVATL
Variant Seq.  SLYNTVATL
Mutations F/Y
Epitope Location F3Y
HXB2 Location F79Y
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Fifth variant to arise; seen only in late post-seroconversion period; positive Elispot response <50 SFC/106PBMC.

References

Melhem2014 Nada M Melhem, Kellie N. Smith, Xiao-Li Huang, Bonnie A Colleton, Weimin Jiang, Robbie B. Mailliard, James I. Mullins, and Charles R. Rinaldo. The Impact of Viral Evolution and Frequency of Variant Epitopes on Primary and Memory Human Immunodeficiency Virus Type 1-Specific CD8+ T Cell Responses. Virology, 450-451:34-48, Feb 2014. PubMed ID: 24503065. Show all entries for this paper.


Displaying record number 59230

HXB2 Location  Gag(148-156)   Gag Epitope Map
View variants at this location
Epitope SPRTLNAWV   Epitope Alignment
Variants
SPRTLDAWV   susceptible form
SPRALNAWV   susceptible form
PPRTLNAWV   observed variant
SPRPLNAWV   susceptible form
SPRTLSAWV   susceptible form
Species (MHC/HLA human(B*07:02)

Variant Details

Showing all: 5 variant(s).


Variant ID.  3373
Epitope Seq.  SPRTLNAWV
Variant Seq.  SPRTLDAWV
Mutations N/D
Epitope Location N6D
HXB2 Location N153D
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note First variant to arise; seen only in early post-seroconversion period; positive Elispot response <100 SFC/106PBMC.


Variant ID.  3374
Epitope Seq.  SPRTLNAWV
Variant Seq.  SPRALNAWV
Mutations T/A
Epitope Location T4A
HXB2 Location T151A
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Second variant to arise; seen in early post-seroconversion period; positive Elispot response <100 SFC/106PBMC.


Variant ID.  3375
Epitope Seq.  SPRTLNAWV
Variant Seq.  PPRTLNAWV
Mutations S/P
Epitope Location S1P
HXB2 Location S148P
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Third variant to arise; seen in late post-seroconversion period; zero Elispot response.


Variant ID.  3376
Epitope Seq.  SPRTLNAWV
Variant Seq.  SPRPLNAWV
Mutations T/P
Epitope Location T4P
HXB2 Location T151P
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Fourth variant to arise; seen in early ART period; positive Elispot response >300 SFC/106PBMC.


Variant ID.  3377
Epitope Seq.  SPRTLNAWV
Variant Seq.  SPRTLSAWV
Mutations N/S
Epitope Location N6S
HXB2 Location N153S
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Fifth variant to arise; seen in early and late ART period; positive Elispot result in early ART >200 SFC/106PBMC, but no response in late ART.

References

Melhem2014 Nada M Melhem, Kellie N. Smith, Xiao-Li Huang, Bonnie A Colleton, Weimin Jiang, Robbie B. Mailliard, James I. Mullins, and Charles R. Rinaldo. The Impact of Viral Evolution and Frequency of Variant Epitopes on Primary and Memory Human Immunodeficiency Virus Type 1-Specific CD8+ T Cell Responses. Virology, 450-451:34-48, Feb 2014. PubMed ID: 24503065. Show all entries for this paper.


Displaying record number 59244

HXB2 Location  Gag(151-159)   Gag Epitope Map
View variants at this location
Epitope TLNAWVKVV   Epitope Alignment
Variants
TLDAWVKVV   susceptible form
ALNAWVKVV   susceptible form
PLNAWVKVV   susceptible form
TLSAWVKVV   susceptible form
Species (MHC/HLA human(A*02:01)

Variant Details

Showing all: 4 variant(s).


Variant ID.  3378
Epitope Seq.  TLNAWVKVV
Variant Seq.  TLDAWVKVV
Mutations N/D
Epitope Location N3D
HXB2 Location N153D
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note First variant to arise; seen in early and late post-seroconversion periods; positive Elispot <100 SFC/106PBMC in early post-SC, and <50 SFC/106PBMC in late post-SC period.


Variant ID.  3379
Epitope Seq.  TLNAWVKVV
Variant Seq.  ALNAWVKVV
Mutations T/A
Epitope Location T1A
HXB2 Location T151A
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Second variant to arise; seen in early and late post-seroconversion periods; positive Elispot response <100 SFC/106PBMC in early period, but negative in late period.


Variant ID.  3380
Epitope Seq.  TLNAWVKVV
Variant Seq.  PLNAWVKVV
Mutations T/P
Epitope Location T1P
HXB2 Location T151P
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Third variant to arise; seen in early and late ART periods; positive Elispot >600 SFC/106PBMC in early ART, and 100-200 SFC/106PBMC in late ART period.


Variant ID.  3381
Epitope Seq.  TLNAWVKVV
Variant Seq.  TLSAWVKVV
Mutations N/S
Epitope Location N3S
HXB2 Location N153S
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Fourth variant to arise; seen in early and late ART periods; positive Elispot about 300 SFC/106PBMC in early ART, and 100-200 SFC/106PBMC in late ART period.

References

Melhem2014 Nada M Melhem, Kellie N. Smith, Xiao-Li Huang, Bonnie A Colleton, Weimin Jiang, Robbie B. Mailliard, James I. Mullins, and Charles R. Rinaldo. The Impact of Viral Evolution and Frequency of Variant Epitopes on Primary and Memory Human Immunodeficiency Virus Type 1-Specific CD8+ T Cell Responses. Virology, 450-451:34-48, Feb 2014. PubMed ID: 24503065. Show all entries for this paper.


Displaying record number 59245

HXB2 Location  Gag(275-283)   Gag Epitope Map
View variants at this location
Epitope RMYSPTSIL   Epitope Alignment
Variants
RMYSPISIL   susceptible form
RMYSPASIL   susceptible form
RMYSPVSIL   susceptible form
Species (MHC/HLA human

Variant Details

Showing all: 3 variant(s).


Variant ID.  3382
Epitope Seq.  RMYSPTSIL
Variant Seq.  RMYSPISIL
Mutations T/I
Epitope Location T6I
HXB2 Location T280I
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note First variant to arise; seen in both early and late post-seroconversion periods; zero Elispot response in early post-SC (seroconversion), and positive Elispot response <50 SFC/106PBMC in late post-SC period.


Variant ID.  3383
Epitope Seq.  RMYSPTSIL
Variant Seq.  RMYSPASIL
Mutations T/A
Epitope Location T6A
HXB2 Location T280A
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Second variant to arise; seen only in late post-seroconversion periods; positive Elispot response <50 SFC/106PBMC.


Variant ID.  3384
Epitope Seq.  RMYSPTSIL
Variant Seq.  RMYSPVSIL
Mutations T/V
Epitope Location T6V
HXB2 Location T280V
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Third variant to arise; seen in late post-seroconversion, early ART, and late ART periods; positive Elispot response <50/106PBMC in late post-SC (seroconversion), about 300 SFC/106PBMC in early ART period, and about 200 SFC/106PBMC in late ART period.

References

Melhem2014 Nada M Melhem, Kellie N. Smith, Xiao-Li Huang, Bonnie A Colleton, Weimin Jiang, Robbie B. Mailliard, James I. Mullins, and Charles R. Rinaldo. The Impact of Viral Evolution and Frequency of Variant Epitopes on Primary and Memory Human Immunodeficiency Virus Type 1-Specific CD8+ T Cell Responses. Virology, 450-451:34-48, Feb 2014. PubMed ID: 24503065. Show all entries for this paper.


Displaying record number 59246

HXB2 Location  gp160(298-307)   gp160 Epitope Map
View variants at this location
Epitope RPNNNTRKSI   Epitope Alignment
Variants
RPNNNTRRSI   observed variant
RPNNNTRKST   susceptible form
RPNNSTRKSI   susceptible form
RPNNDTRKSI   susceptible form
RSNNNTRKSI   observed variant
RPNNNTRKRI   susceptible form
RPNNNTGKRI   observed variant
RPSNNTRKRI   observed variant
RPTNNTRKSI   observed variant
RPNNNTRKCI   observed variant
RPNNNTRKSL   susceptible form
Species (MHC/HLA human(B*07:02)

Variant Details

Showing all: 11 variant(s).


Variant ID.  3385
Epitope Seq.  RPNNNTRKSI
Variant Seq.  RPNNNTRRSI
Mutations K/R
Epitope Location K8R
HXB2 Location K282R
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note First variant detected; no Elispot response.


Variant ID.  3386
Epitope Seq.  RPNNNTRKSI
Variant Seq.  RPNNNTRKST
Mutations I/T
Epitope Location I10T
HXB2 Location I284T
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Third variant to arise; seen only in late post-seroconversion period; Elispot response about 2000 SFC/106PBMC.


Variant ID.  3387
Epitope Seq.  RPNNNTRKSI
Variant Seq.  RPNNSTRKSI
Mutations N/S
Epitope Location N5S
HXB2 Location N279S
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Fourth variant to arise; seen only in late post-seroconversion period; postive Elispot response about 3000 SFC/106PBMC.


Variant ID.  3388
Epitope Seq.  RPNNNTRKSI
Variant Seq.  RPNNDTRKSI
Mutations N/D
Epitope Location N5D
HXB2 Location N279D
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Fifth variant to arise; seen only in late post-seroconversion period; positive Elispot response about 2500 SFC/106PBMC


Variant ID.  3389
Epitope Seq.  RPNNNTRKSI
Variant Seq.  RSNNNTRKSI
Mutations P/S
Epitope Location P2S
HXB2 Location P276S
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Second variant to arise; no Elispot response.


Variant ID.  3390
Epitope Seq.  RPNNNTRKSI
Variant Seq.  RPNNNTRKRI
Mutations S/R
Epitope Location S9R
HXB2 Location S283R
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Sixth variant to arise; seen in late post-SC (seroconversion), early ART, and late ART periods; Elispot response <100 SFC/106PBMC in all 3 periods.


Variant ID.  3391
Epitope Seq.  RPNNNTRKSI
Variant Seq.  RPNNNTGKRI
Mutations R/G S/R
Epitope Location R7G S9R
HXB2 Location R281G S283R
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Seventh variant to arise; no positive Elispot responses.


Variant ID.  3392
Epitope Seq.  RPNNNTRKSI
Variant Seq.  RPSNNTRKRI
Mutations N/S S/R
Epitope Location N3S S9R
HXB2 Location N277S S283R
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Eighth variant to arise; no positive Elispot responses.


Variant ID.  3393
Epitope Seq.  RPNNNTRKSI
Variant Seq.  RPTNNTRKSI
Mutations N/T
Epitope Location N3T
HXB2 Location N277T
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Nineth variant to arise; seen in early and late ART periods; Elispot response <50/106PBMC in early ART and zero in late ART period.


Variant ID.  3394
Epitope Seq.  RPNNNTRKSI
Variant Seq.  RPNNNTRKCI
Mutations S/C
Epitope Location S9C
HXB2 Location S283C
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Tenth variant to arise; no positive Elispot response.


Variant ID.  3395
Epitope Seq.  RPNNNTRKSI
Variant Seq.  RPNNNTRKSL
Mutations I/L
Epitope Location I10L
HXB2 Location I284L
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Eleventh variant to arise; seen in early and late ART periods; positive Elispot response <100 SFC/106PBMC in early ART and about 200 SFC/106PBMC in late ART.

References

Melhem2014 Nada M Melhem, Kellie N. Smith, Xiao-Li Huang, Bonnie A Colleton, Weimin Jiang, Robbie B. Mailliard, James I. Mullins, and Charles R. Rinaldo. The Impact of Viral Evolution and Frequency of Variant Epitopes on Primary and Memory Human Immunodeficiency Virus Type 1-Specific CD8+ T Cell Responses. Virology, 450-451:34-48, Feb 2014. PubMed ID: 24503065. Show all entries for this paper.


Displaying record number 59247

HXB2 Location  gp160(311-320)   gp160 Epitope Map
View variants at this location
Epitope IGPGRAFYAT   Epitope Alignment
Variants
IGsGRAFYAT   observed variant
IGPGRAFYAa   observed variant
IGPGiAFYAT   observed variant
Species (MHC/HLA human

Variant Details

Showing all: 3 variant(s).


Variant ID.  4139
Epitope Seq.  IGPGRAFYAT
Variant Seq.  IGsGRAFYAT
Mutations P/S
Epitope Location P3S
HXB2 Location P313S
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method Sequence
Note IGsGRAFYAT was one variant of Env311-320, IGPGRAFYAT in Subject 8.


Variant ID.  4140
Epitope Seq.  IGPGRAFYAT
Variant Seq.  IGPGRAFYAa
Mutations T/A
Epitope Location T10A
HXB2 Location T320A
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method Sequence
Note IGPGRAFYAa was one variant of Env311-320, IGPGRAFYAT in Subject 8.


Variant ID.  4141
Epitope Seq.  IGPGRAFYAT
Variant Seq.  IGPGiAFYAT
Mutations R/I
Epitope Location R5I
HXB2 Location R315I
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method Sequence
Note IGPGiAFYAT was one variant of Env311-320, IGPGRAFYAT in Subject 8.

References

Melhem2014 Nada M Melhem, Kellie N. Smith, Xiao-Li Huang, Bonnie A Colleton, Weimin Jiang, Robbie B. Mailliard, James I. Mullins, and Charles R. Rinaldo. The Impact of Viral Evolution and Frequency of Variant Epitopes on Primary and Memory Human Immunodeficiency Virus Type 1-Specific CD8+ T Cell Responses. Virology, 450-451:34-48, Feb 2014. PubMed ID: 24503065. Show all entries for this paper.


Displaying record number 59248

HXB2 Location  gp160(341-349)   gp160 Epitope Map
View variants at this location
Epitope TLEQVVKKL   Epitope Alignment
Variants
ALEQVVKKL   observed variant
MLEQVVKKL   observed variant
TLAQVVKKL   observed variant
TLEQVVEKL   susceptible form
ILEQVVKKL   observed variant
TLEQVVNKL   observed variant
TLDKVVKKL   susceptible form
TLGRVAKKL   observed variant
TLGQVVEKL   susceptible form
TLDKVVEKL   susceptible form
TLGKVVKKL   observed variant
Species (MHC/HLA human

Variant Details

Showing all: 11 variant(s).


Variant ID.  3396
Epitope Seq.  TLEQVVKKL
Variant Seq.  ALEQVVKKL
Mutations T/A
Epitope Location T1A
HXB2 Location T341A
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note First variant to arise; seen in early and late post-seroconversion period; no Elispot response in early post-SC (seroconversion), and response <50 SFC/106PBMC in late post-SC.


Variant ID.  3397
Epitope Seq.  TLEQVVKKL
Variant Seq.  MLEQVVKKL
Mutations T/M
Epitope Location T1M
HXB2 Location T341M
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Second variant to arise; seen only in the late post-seroconversion period; Elispot response <50 SFC/106PBMC.


Variant ID.  3398
Epitope Seq.  TLEQVVKKL
Variant Seq.  TLAQVVKKL
Mutations E/A
Epitope Location E3A
HXB2 Location E343A
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Third variant to arise; seen only in the late post-seroconversion period; Elispot response <50 SFC/106PBMC .


Variant ID.  3399
Epitope Seq.  TLEQVVKKL
Variant Seq.  TLEQVVEKL
Mutations K/E
Epitope Location K7E
HXB2 Location K347E
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Fourth variant to arise; seen in the late post-seroconversion, early ART and late ART periods; Elispot response <50 SFC/106PBMC in late post-SC period; about 300 SFC/106PBMC in early and ART, and about 800 SFC/106PBMC in late ART period.


Variant ID.  3400
Epitope Seq.  TLEQVVKKL
Variant Seq.  ILEQVVKKL
Mutations T/I
Epitope Location T1I
HXB2 Location T341I
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Fifth variant to arise; seen only in the late post-seroconversion period; Elispot response <50 SFC/106PBMC.


Variant ID.  3401
Epitope Seq.  TLEQVVKKL
Variant Seq.  TLEQVVNKL
Mutations K/N
Epitope Location K7N
HXB2 Location K347N
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Sixth variant to arise; seen only in the late post-seroconversion period; Elispot response <50 SFC/106PBMC .


Variant ID.  3402
Epitope Seq.  TLEQVVKKL
Variant Seq.  TLDKVVKKL
Mutations E/D Q/K
Epitope Location E3D Q4K
HXB2 Location E343D Q344K
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Seventh variant to arise; seen in the late post-seroconversion, early ART and late ART periods; Elispot response <50 SFC/106PBMC in late post-SC (seroconversion) period; about 100 SFC/106PBMC in early and late ART periods.


Variant ID.  3403
Epitope Seq.  TLEQVVKKL
Variant Seq.  TLGRVAKKL
Mutations E/G Q/R V/A
Epitope Location E3G Q4R V6A
HXB2 Location E343G Q344R V346A
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Eighth variant to arise; seen only in the late post-seroconversion period; Elispot response <50 SFC/106PBMC .


Variant ID.  3404
Epitope Seq.  TLEQVVKKL
Variant Seq.  TLGQVVEKL
Mutations E/G K/E
Epitope Location E3G K7E
HXB2 Location E343G K347E
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Ninth variant to arise; seen in the late post-seroconversion and late ART periods; Elispot response <50 SFC/106PBMC during late post-SC period, and about 500 SFC/106PBMC in late ART period.


Variant ID.  3405
Epitope Seq.  TLEQVVKKL
Variant Seq.  TLDKVVEKL
Mutations E/D Q/K K/E
Epitope Location E3D Q4K K7E
HXB2 Location E343D Q344K K347E
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Tenth variant to arise; seen in the late post-seroconversion, early ART and late ART periods; Elispot response <50 SFC/106PBMC in late post-SC (seroconversion) period; about 900 SFC/106PBMC in early and ART, and about 600 SFC/106PBMC in late ART period.


Variant ID.  3406
Epitope Seq.  TLEQVVKKL
Variant Seq.  TLGKVVKKL
Mutations E/G Q/K
Epitope Location E3G Q4K
HXB2 Location E343G Q344K
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Eleventh variant to arise; no Elispot response.

References

Melhem2014 Nada M Melhem, Kellie N. Smith, Xiao-Li Huang, Bonnie A Colleton, Weimin Jiang, Robbie B. Mailliard, James I. Mullins, and Charles R. Rinaldo. The Impact of Viral Evolution and Frequency of Variant Epitopes on Primary and Memory Human Immunodeficiency Virus Type 1-Specific CD8+ T Cell Responses. Virology, 450-451:34-48, Feb 2014. PubMed ID: 24503065. Show all entries for this paper.


Displaying record number 59249

HXB2 Location  Nef(68-76)   Nef Epitope Map
View variants at this location
Epitope FPVRPQVPL   Epitope Alignment
Variants
FSVRPQVPL   susceptible form
FPARPQVPL   susceptible form
SPVRPQVPL   susceptible form
FPIRPQVPL   observed variant
Species (MHC/HLA human(B*07:02)

Variant Details

Showing all: 4 variant(s).


Variant ID.  3407
Epitope Seq.  FPVRPQVPL
Variant Seq.  FSVRPQVPL
Mutations P/S
Epitope Location P2S
HXB2 Location P69S
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note First variant to arise; seen only in early post-seroconversion period; Elispot response ˜50 SFC/106PBMC .


Variant ID.  3408
Epitope Seq.  FPVRPQVPL
Variant Seq.  FPARPQVPL
Mutations V/A
Epitope Location V3A
HXB2 Location V70A
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Second variant to arise; seen only in early post-seroconversion period; Elispot response <50 SFC/106PBMC .


Variant ID.  3409
Epitope Seq.  FPVRPQVPL
Variant Seq.  SPVRPQVPL
Mutations F/S
Epitope Location F1S
HXB2 Location F68S
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Third variant to arise; seen only in early post-seroconversion period; Elispot response <50 SFC/106PBMC .


Variant ID.  3410
Epitope Seq.  FPVRPQVPL
Variant Seq.  FPIRPQVPL
Mutations V/I
Epitope Location V3I
HXB2 Location V70I
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Fourth variant to arise; seen only in late post-seroconversion period; no Elispot response.

References

Melhem2014 Nada M Melhem, Kellie N. Smith, Xiao-Li Huang, Bonnie A Colleton, Weimin Jiang, Robbie B. Mailliard, James I. Mullins, and Charles R. Rinaldo. The Impact of Viral Evolution and Frequency of Variant Epitopes on Primary and Memory Human Immunodeficiency Virus Type 1-Specific CD8+ T Cell Responses. Virology, 450-451:34-48, Feb 2014. PubMed ID: 24503065. Show all entries for this paper.


Displaying record number 59250

HXB2 Location  Nef(77-85)   Nef Epitope Map
View variants at this location
Epitope RPMTWKGAL   Epitope Alignment
Variants
RPMTWKAAL   susceptible form
RPMTYKGAL   susceptible form
RPMTRKAAL   susceptible form
RPMTCKGAL   susceptible form
RPMTYKAAL   observed variant
RPITYKAAL   susceptible form
Species (MHC/HLA human

Variant Details

Showing all: 6 variant(s).


Variant ID.  3411
Epitope Seq.  RPMTWKGAL
Variant Seq.  RPMTWKAAL
Mutations G/A
Epitope Location G7A
HXB2 Location G83A
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note First variant detected; seen throughout infection; Elispot responses in early post-seroconversion (˜100 SFC/106PBMC ), last post-SC (seroconversion) (at ˜50 SFC/106PBMC ), and early ART (˜100 SFC) periods.


Variant ID.  3412
Epitope Seq.  RPMTWKGAL
Variant Seq.  RPMTYKGAL
Mutations W/Y
Epitope Location W5Y
HXB2 Location W81Y
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Second variant detected; seen only in early post-seroconversion; positive Elispot response ˜50 SFC/106PBMC .


Variant ID.  3413
Epitope Seq.  RPMTWKGAL
Variant Seq.  RPMTRKAAL
Mutations W/R G/A
Epitope Location W5R G7A
HXB2 Location W81R G83A
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Third variant detected; seen only in early post-seroconversion; positive Elispot response ˜200 SFC/106PBMC .


Variant ID.  3414
Epitope Seq.  RPMTWKGAL
Variant Seq.  RPMTCKGAL
Mutations W/C
Epitope Location W5C
HXB2 Location W81C
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Fourth variant detected; seen only in early post-seroconversion; positive Elispot response ˜100 SFC/106PBMC .


Variant ID.  3415
Epitope Seq.  RPMTWKGAL
Variant Seq.  RPMTYKAAL
Mutations W/Y G/A
Epitope Location W5Y G7A
HXB2 Location W81Y G83A
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Fifth variant detected; seen only in late post-seroconversion; no Elispot response.


Variant ID.  3416
Epitope Seq.  RPMTWKGAL
Variant Seq.  RPITYKAAL
Mutations M/I W/Y G/A
Epitope Location M3I W5Y G7A
HXB2 Location M79I W81Y G83A
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Sixth variant detected; seen in early and late ART periods; Elispot response ˜200 SFC/106PBMC in early ART period and ˜150 SFC/106PBMC in late ART period.

References

Melhem2014 Nada M Melhem, Kellie N. Smith, Xiao-Li Huang, Bonnie A Colleton, Weimin Jiang, Robbie B. Mailliard, James I. Mullins, and Charles R. Rinaldo. The Impact of Viral Evolution and Frequency of Variant Epitopes on Primary and Memory Human Immunodeficiency Virus Type 1-Specific CD8+ T Cell Responses. Virology, 450-451:34-48, Feb 2014. PubMed ID: 24503065. Show all entries for this paper.


Displaying record number 59251

HXB2 Location  Nef(128-137)   Nef Epitope Map
View variants at this location
Epitope TPGPGTRYPL   Epitope Alignment
Variants
TPGPGIRFPL   susceptible form
TPGPGIRYPL   susceptible form
TPGPGIRYPV   susceptible form
TPGPGIRFPI   susceptible form
TSGPGTRFPL   susceptible form
IPGPG-RHPL   observed variant
TPGPGVRYPL   observed variant
TPGPGPRYPL   susceptible form
TPGPGTRFPL   observed variant
TPGPGPRFPL   observed variant
TPGPGIRYPM   susceptible form
TPGPGPRYPV   susceptible form
TPGPGPRYPM   susceptible form
TKGPGIRFPL   susceptible form
TPGPGPRYPM   susceptible form
Species (MHC/HLA human

Variant Details

Showing all: 15 variant(s).


Variant ID.  3417
Epitope Seq.  TPGPGTRYPL
Variant Seq.  TPGPGIRFPL
Mutations T/I Y/F
Epitope Location T6I Y8F
HXB2 Location T133I Y135F
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method HLA binding
Note First variant detected; seen in early and late post-SC periods; positive Elispot responses ˜50 SFC/106PBMC in both periods.


Variant ID.  3418
Epitope Seq.  TPGPGTRYPL
Variant Seq.  TPGPGIRYPL
Mutations T/I
Epitope Location T6I
HXB2 Location T133I
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method HLA binding
Note Second variant detected; seen in early and late post-SC periods; positive Elispot responses in early post-SC (˜150 SFC/106PBMC ) and late post-SC (<50 SFC/106PBMC ).


Variant ID.  3419
Epitope Seq.  TPGPGTRYPL
Variant Seq.  TPGPGIRYPV
Mutations L/V T/I
Epitope Location L10V T6I
HXB2 Location L137V T133I
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method HLA binding
Note Third variant detected; seen in early and late post-seroconversion periods; positive Elispot responses in early post-SC(seroconversion) (˜50 SFC/106PBMC ) and late post-SC (<50 SFC/106PBMC ).


Variant ID.  3420
Epitope Seq.  TPGPGTRYPL
Variant Seq.  TPGPGIRFPI
Mutations L/I T/I Y/F
Epitope Location L10I T6I Y8F
HXB2 Location L137I T133I Y135F
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method HLA binding
Note Fourth variant detected; seen in early post-SC (seroconversion) period; positive Elispot response ˜50 SFC/106PBMC .


Variant ID.  3421
Epitope Seq.  TPGPGTRYPL
Variant Seq.  TSGPGTRFPL
Mutations P/S Y/F
Epitope Location P2S Y8F
HXB2 Location P129S Y135F
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method HLA binding
Note Fifth variant detected; seen in early post-SC period; Elispot response <50 SFC/106PBMC .


Variant ID.  3422
Epitope Seq.  TPGPGTRYPL
Variant Seq.  IPGPG-RHPL
Mutations T/I T/- Y/H
Epitope Location T1I T6- Y8H
HXB2 Location T128I T133- Y135H
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method HLA binding
Note Sixth variant detected; seen in early post-SC (seroconversion) period; Elispot response <20 SFC/106PBMC .


Variant ID.  3423
Epitope Seq.  TPGPGTRYPL
Variant Seq.  TPGPGVRYPL
Mutations T/V
Epitope Location T6V
HXB2 Location T133V
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method HLA binding
Note Seventh variant detected; seen in early post-SC period; no Elispot response.


Variant ID.  3425
Epitope Seq.  TPGPGTRYPL
Variant Seq.  TPGPGPRYPL
Mutations T/P
Epitope Location T6P
HXB2 Location T133P
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method HLA binding
Note Eighth variant detected; seen at all 4 timepoints in infection; positive Elispot responses in early post-seroconversion (<50 SFC), late post-SC (<50 SFC), early ART (˜250 SFC), and late ART (<50 SFC).


Variant ID.  3426
Epitope Seq.  TPGPGTRYPL
Variant Seq.  TPGPGTRFPL
Mutations Y/F
Epitope Location Y8F
HXB2 Location Y135F
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method HLA binding
Note Ninth variant detected; seen in early post-SC period; no Elispot response.


Variant ID.  3427
Epitope Seq.  TPGPGTRYPL
Variant Seq.  TPGPGPRFPL
Mutations T/P Y/F
Epitope Location T6P Y8F
HXB2 Location T133P Y135F
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method HLA binding
Note Tenth variant detected; seen only in early post-seroconversion period; no Elispot response.


Variant ID.  3428
Epitope Seq.  TPGPGTRYPL
Variant Seq.  TPGPGIRYPM
Mutations L/M T/I
Epitope Location L10M T6I
HXB2 Location L137M T133I
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method HLA binding
Note Eleventh variant detected; seen only in late post-seroconversion period; Elispot response <50 SFC/106PBMC .


Variant ID.  3429
Epitope Seq.  TPGPGTRYPL
Variant Seq.  TPGPGPRYPV
Mutations L/V T/P
Epitope Location L10V T6P
HXB2 Location L137V T133P
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method HLA binding
Note Twelfth variant detected; seen only in late post-seroconversion period; Elispot response <50 SFC/106PBMC .


Variant ID.  3430
Epitope Seq.  TPGPGTRYPL
Variant Seq.  TPGPGPRYPM
Mutations L/M T/P
Epitope Location L10M T6P
HXB2 Location L137M T133P
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method HLA binding
Note Thirteenth variant detected; seen in early and late ART periods; positive Elispot response in early ART (˜100 SFC) and late ART (˜100 SFC).


Variant ID.  3431
Epitope Seq.  TPGPGTRYPL
Variant Seq.  TKGPGIRFPL
Mutations P/K T/I Y/F
Epitope Location P2K T6I Y8F
HXB2 Location P129K T133I Y135F
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method HLA binding
Note Fourteenth variant detected; seen in early and late ART periods; strongly positive Elispot responses in early ART (˜200 SFC/106PBMC ) and late ART (˜300 SFC/106PBMC).


Variant ID.  3456
Epitope Seq.  TPGPGTRYPL
Variant Seq.  TPGPGPRYPM
Mutations L/M T/P
Epitope Location L10M T6P
HXB2 Location L137M T133P
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method HLA binding
Note Thirteenth variant detected; seen in early and late ART periods; positive Elispot response in early ART (˜100 SFC/106PBMC ) and late ART (˜100 SFC/106PBMC ).

References

Melhem2014 Nada M Melhem, Kellie N. Smith, Xiao-Li Huang, Bonnie A Colleton, Weimin Jiang, Robbie B. Mailliard, James I. Mullins, and Charles R. Rinaldo. The Impact of Viral Evolution and Frequency of Variant Epitopes on Primary and Memory Human Immunodeficiency Virus Type 1-Specific CD8+ T Cell Responses. Virology, 450-451:34-48, Feb 2014. PubMed ID: 24503065. Show all entries for this paper.


Displaying record number 59262

HXB2 Location  Nef(136-145)   Nef Epitope Map
View variants at this location
Epitope PLTFGWCFKL   Epitope Alignment
Variants
PLTLGWCFKL   observed variant
PITFGWCFKL   susceptible form
PVTFGWCFKL   susceptible form
PLCFGWCFKL   susceptible form
PVCFGWCFKL   observed variant
PMCFGWCFKL   susceptible form
PLCFGWCFKP   susceptible form
Species (MHC/HLA human

Variant Details

Showing all: 7 variant(s).


Variant ID.  3432
Epitope Seq.  PLTFGWCFKL
Variant Seq.  PLTLGWCFKL
Mutations F/L
Epitope Location F4L
HXB2 Location F139L
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note First variant detected; seen only at early post-seroconversion period; no Elispot response.


Variant ID.  3433
Epitope Seq.  PLTFGWCFKL
Variant Seq.  PITFGWCFKL
Mutations L/I
Epitope Location L2I
HXB2 Location L137I
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Second variant detected; seen only at early post-seroconversion period; strongly positive Elispot response ˜200 SFC/106PBMC .


Variant ID.  3434
Epitope Seq.  PLTFGWCFKL
Variant Seq.  PVTFGWCFKL
Mutations L/V
Epitope Location L2V
HXB2 Location L137V
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Third variant detected; seen in early post-seroconversion period; positive Elispot response ˜200 SFC/106PBMC .


Variant ID.  3435
Epitope Seq.  PLTFGWCFKL
Variant Seq.  PLCFGWCFKL
Mutations T/C
Epitope Location T3C
HXB2 Location T138C
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Fourth variant detected; seen in the late post-seroconversion, early ART, and late ART periods; positive Elispot response in the late post-seroconversion (<50 SFC/106PBMC ) and early ART (˜50 SFC/106PBMC ) periods; response lost in the late ART period.


Variant ID.  3436
Epitope Seq.  PLTFGWCFKL
Variant Seq.  PVCFGWCFKL
Mutations L/V T/C
Epitope Location L2V T3C
HXB2 Location L137V T138C
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Fifth variant detected; seen in the late post-seroconversion period; no Elispot response.


Variant ID.  3437
Epitope Seq.  PLTFGWCFKL
Variant Seq.  PMCFGWCFKL
Mutations L/M T/C
Epitope Location L2M T3C
HXB2 Location L137M T138C
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Sixth variant detected; seen in the late post-seroconversion, early ART and late ART periods; positive Elispot response only in the early ART period (˜100 SFC/106PBMC ).


Variant ID.  3438
Epitope Seq.  PLTFGWCFKL
Variant Seq.  PLCFGWCFKP
Mutations L/P T/C
Epitope Location L10P T3C
HXB2 Location L145P T138C
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Seventh variant detected; seen in the late post-seroconversion period; Elispot response <50 SFC/106PBMC .

References

Melhem2014 Nada M Melhem, Kellie N. Smith, Xiao-Li Huang, Bonnie A Colleton, Weimin Jiang, Robbie B. Mailliard, James I. Mullins, and Charles R. Rinaldo. The Impact of Viral Evolution and Frequency of Variant Epitopes on Primary and Memory Human Immunodeficiency Virus Type 1-Specific CD8+ T Cell Responses. Virology, 450-451:34-48, Feb 2014. PubMed ID: 24503065. Show all entries for this paper.


Displaying record number 59263

HXB2 Location  Nef(180-189)   Nef Epitope Map
View variants at this location
Epitope VLVWRFDSSL   Epitope Alignment
Variants
VLVWKFDSSL   susceptible form
VLVWKSDSSL   observed variant
VLVWKFDSNL   observed variant
VLVWKFDSKL   susceptible form
VLVWKFDSRL   susceptible form
VLVWKFDSHL   observed variant
Species (MHC/HLA human

Variant Details

Showing all: 6 variant(s).


Variant ID.  3439
Epitope Seq.  VLVWRFDSSL
Variant Seq.  VLVWKFDSSL
Mutations R/K
Epitope Location R5K
HXB2 Location R184K
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note First variant detected; seen in early and late post-seroconversion periods; Elispot response only in late post-SC (seroconversion) period (˜50 SFC/106PBMC ).


Variant ID.  3440
Epitope Seq.  VLVWRFDSSL
Variant Seq.  VLVWKSDSSL
Mutations R/K F/S
Epitope Location R5K F6S
HXB2 Location R184K F185S
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Second variant detected; Elispot response not tested.


Variant ID.  3441
Epitope Seq.  VLVWRFDSSL
Variant Seq.  VLVWKFDSNL
Mutations R/K S/N
Epitope Location R5K S9N
HXB2 Location R184K S188N
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Third variant detected; Elispot response not measured.


Variant ID.  3442
Epitope Seq.  VLVWRFDSSL
Variant Seq.  VLVWKFDSKL
Mutations R/K S/K
Epitope Location R5K S9K
HXB2 Location R184K S188K
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Fourth variant detected; seen in early and late ART periods; Elispot response ˜600 SFC/106PBMC in early ART and ˜100 SFC/106PBMC in late ART.


Variant ID.  3443
Epitope Seq.  VLVWRFDSSL
Variant Seq.  VLVWKFDSRL
Mutations R/K S/R
Epitope Location R5K S9R
HXB2 Location R184K S188R
Mutation Type SF: susceptible form
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Fifth variant detected; seen in early and late ART periods; Elispot response increased from early ART (˜200 SFC/106PBMC ) to late ART (˜300 SFC/106PBMC ) periods.


Variant ID.  3444
Epitope Seq.  VLVWRFDSSL
Variant Seq.  VLVWKFDSHL
Mutations R/K S/H
Epitope Location R5K S9H
HXB2 Location R184K S188H
Mutation Type OV: observed variant
Epitope Subtype B
Variant Subtype B
Method CD8 T-cell Elispot - IFNy, Sequence
Note Sixth variant detected; seen in early and late ART periods; no Elispot response.

References

Melhem2014 Nada M Melhem, Kellie N. Smith, Xiao-Li Huang, Bonnie A Colleton, Weimin Jiang, Robbie B. Mailliard, James I. Mullins, and Charles R. Rinaldo. The Impact of Viral Evolution and Frequency of Variant Epitopes on Primary and Memory Human Immunodeficiency Virus Type 1-Specific CD8+ T Cell Responses. Virology, 450-451:34-48, Feb 2014. PubMed ID: 24503065. Show all entries for this paper.


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