A consensus epitope prediction approach identifies the breadth of murine TCD8+-cell responses to vaccinia virus

Moutaftsi, Magdalini; Peters, Bjoern; Pasquetto, Valérie; Tscharke, David C.; Sidney, John; Bui, Huynh-Hoa; Grey, Howard M.; Sette, Alessandro

doi:10.1038/nbt1215

Cited by 508 publications

(502 citation statements)

References 14 publications

Supporting

Mentioning

484

Contrasting

Unclassified

Order By: Relevance

“…Similar ranges of binding affinities were detected for VACV epitopes restricted by other human (12,13) and murine (7,8,11) class I MHC molecules. Also, a recent exhaustive study in the mouse H-2 b system revealed that in the course of VACV infection D b and K b molecules present 22 and 27 epitopes, respectively (11). Thus, the number of different VACV epitopes presented by a given MHC molecule seems to be in the same range in either the murine or human system.…”

Section: Discussionsupporting

confidence: 50%

A Quantitative Analysis of the Variables Affecting the Repertoire of T Cell Specificities Recognized after Vaccinia Virus Infection

Assarsson

Sidney

Oseroff

et al. 2007

The Journal of Immunology

Self Cite

173

197

View full text Add to dashboard Cite

Section: Discussionsupporting

confidence: 50%

A Quantitative Analysis of the Variables Affecting the Repertoire of T Cell Specificities Recognized after Vaccinia Virus Infection

Assarsson

Sidney

Oseroff

et al. 2007

The Journal of Immunology

Self Cite

173

197

View full text Add to dashboard Cite

“…The predictions were performed for 8–11‐mer peptides with NetMHC 4.0,18 NetMHC 3.4,19 NetMHCpan 3.0,20 NetMHCpan 2.8,20 NetMHCcons 1.1,21 Consensus,22 PickPocket 1.1,23 SMM,24 SMMPMBEC,25 BIMAS,26 and SYFPEITHI 27. Results of all prediction algorithms were combined.…”

Section: Methodsmentioning

confidence: 99%

A Targeted LC‐MS Strategy for Low‐Abundant HLA Class‐I‐Presented Peptide Detection Identifies Novel Human Papillomavirus T‐Cell Epitopes

et al. 2018

View full text Add to dashboard Cite

For rational design of therapeutic vaccines, detailed knowledge about target epitopes that are endogenously processed and truly presented on infected or transformed cells is essential. Many potential target epitopes (viral or mutation‐derived), are presented at low abundance. Therefore, direct detection of these peptides remains a challenge. This study presents a method for the isolation and LC‐MS3‐based targeted detection of low‐abundant human leukocyte antigen (HLA) class‐I‐presented peptides from transformed cells. Human papillomavirus (HPV) was used as a model system, as the HPV oncoproteins E6 and E7 are attractive therapeutic vaccination targets and expressed in all transformed cells, but present at low abundance due to viral immune evasion mechanisms. The presented approach included preselection of target antigen‐derived peptides by in silico predictions and in vitro binding assays. The peptide purification process was tailored to minimize contaminants after immunoprecipitation of HLA‐peptide complexes, while keeping high isolation yields of low‐abundant target peptides. The subsequent targeted LC‐MS3 detection allowed for increased sensitivity, which resulted in successful detection of the known HLA‐A2‐restricted epitope E711–19 and ten additional E7‐derived peptides on the surface of HPV16‐transformed cells. T‐cell reactivity was shown for all the 11 detected peptides in ELISpot assays, which shows that detection by our approach has high predictive value for immunogenicity. The presented strategy is suitable for validating even low‐abundant candidate epitopes to be true immunotherapy targets.

show abstract

“…For certain experimental systems, it may also be possible to use CD8 + T-cell-enriched cell populations from virus-immunized animals, since, during the acute phase of infection, virusspecific T cells may comprise at a large percentage of CD8 + T cells (Moutaftsi et al, 2006).…”

Section: Discussionmentioning

confidence: 99%

Estimation of low frequency antigen-presenting cells with a novel RELISPOT assay

Dzutsev¹,

Belyakov²,

Isakov³

et al. 2008

Journal of Immunological Methods

View full text Add to dashboard Cite

Adequate presentation of self and foreign antigens is a key factor for efficient T-cell immunosurveillance against pathogens and tumors. Cells presenting foreign antigens usually comprise a rare population and are difficult to detect even at the peak of infection. Here we demonstrate a CD8 + T-cell-based approach that allows detection of specific antigen-presenting cells (APC) at a frequency of less than 0.0005%. When T cells are in excess, they form rosettes with rare APCs, which appear as single spots in an IFN-γ ELISPOT assay. Using this RELISPOT (Rosette ELISPOT) method we demonstrate the dynamic interplay between CD8 T cells and professional and non-professional APCs following virus challenge.

show abstract

A consensus epitope prediction approach identifies the breadth of murine TCD8+-cell responses to vaccinia virus

Cited by 508 publications

References 14 publications

A Quantitative Analysis of the Variables Affecting the Repertoire of T Cell Specificities Recognized after Vaccinia Virus Infection

A Quantitative Analysis of the Variables Affecting the Repertoire of T Cell Specificities Recognized after Vaccinia Virus Infection

A Targeted LC‐MS Strategy for Low‐Abundant HLA Class‐I‐Presented Peptide Detection Identifies Novel Human Papillomavirus T‐Cell Epitopes

Estimation of low frequency antigen-presenting cells with a novel RELISPOT assay

Contact Info

Product

Resources

About