The DOI matches its Crossref record; 30 of the 30 references it cites were found in a registry or an index.
Identifying MHC Class I Epitopes by Predicting the TAP Transport Efficiency of Epitope Precursors
Abstract
We are able to make reliable predictions of the efficiency with which peptides of arbitrary lengths will be transported by TAP. The pressure exerted by TAP on Ag presentation thus can be assessed by checking to what extent MHC class I (MHC-I)-presented epitopes can be discriminated from random peptides on the basis of predicted TAP transport efficiencies alone. Best discriminations were obtained when N-terminally prolonged epitope precursor peptides were included and the contribution of the N-terminal residues to the score were down-weighted in comparison with the contribution of the C terminus. We provide evidence that two factors may account for this N-terminal down-weighting: 1) the uncertainty as to which precursors are used in vivo and 2) the coevolution in the C-terminal sequence specificities of TAP and other agents in the pathway, which may vary among the various MHC-I alleles. Combining predictions of MHC-I binding affinities with predictions of TAP transport efficiency led to an improved identification of epitopes, which was not the case when predictions of MHC-I binding affinities were combined with predictions of C-terminal cleavages made by the proteasome.
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ChaperISM: improved chaperone binding prediction using position-independent scoring matrices
Gutierres, M. B. B., Bonorino, C. B. C., & Rigo, M. M. (2020) · Bioinformatics · doi:10.1093/bioinformatics/btz670 · Cited by 29
Metadata
- Authors
- Peters, B., Bulik, S., Tampe, R., van Endert, P. M., & Holzhütter, H.-G.
- Venue
- The Journal of Immunology
- Publisher
- Oxford University Press (OUP)
- Published
- 2003-08
- Volume
- 171
- Issue
- 4
- Pages
- 1741-1749
- ISSN
- 0022-1767 (ISSN-L)
- 1550-6606
- OpenAlex
- W2142774061
- Cited by
- 339
- References
- 30
- FWCI
- 3.32
- Type
- journal article
- Language
- en
- Open access
- closed
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- Peters, B., Bulik, S., Tampe, R., van Endert, P. M., & Holzhütter, H.-G. (2003). Identifying MHC Class I Epitopes by Predicting the TAP Transport Efficiency of Epitope Precursors. The Journal of Immunology. https://doi.org/10.4049/jimmunol.171.4.1741
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Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
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