ArticleNucleic acids research2011
PAComplex: a web server to infer peptide antigen families and binding models from TCR-pMHC complexes.
Article in Nucleic acids research, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed, 39 citations in OpenAlex.
- AI-driven neoantigen identification: a comprehensive review from somatic variant calling to T cell recognition.Journal of translational medicine · 2026Review
- Systems Vaccinology-Integrated Proteomics to Develop a Novel Prophylactic and Therapeutic Vaccine Against Human Papillomavirus 16.Bioinformatics and biology insights · 2026Article
- Computational methods and data resources for predicting tumor neoantigens.Briefings in bioinformatics · 2025Review
- Insights into structural vaccinology harnessed for universal coronavirus vaccine development.Clinical and experimental vaccine research · 2024Review
- Design of a Novel Recombinant Multi-Epitope Vaccine against Triple-Negative Breast CancerIranian biomedical journal · 2022Article
- Cancer Neoantigens: Challenges and Future Directions for Prediction, Prioritization, and Validation.Frontiers in oncology · 2022Review
- Peptide-Based Vaccines for Tuberculosis.Frontiers in immunology · 2022Review
- Infectious disease mRNA vaccines and a review on epitope prediction for vaccine design.Briefings in functional genomics · 2021Review
- Peptides-based vaccine against SARS-Bio-design and manufacturing · 2021Article
- T and B cell Epitope analysis of SARS-CoV-2 S protein based on immunoinformatics and experimental research.Journal of cellular and molecular medicine · 2021Article
- T-cell receptor affinity in the age of cancer immunotherapy.Molecular carcinogenesis · 2020Review
- Benchmarking predictions of MHC class I restricted T cell epitopes in a comprehensively studied model system.PLoS computational biology · 2020Article
- TCRpMHCmodels: Structural modelling of TCR-pMHC class I complexes.Scientific reports · 2019Article
- Article
- Identification of the cognate peptide-MHC target of T cell receptors using molecular modeling and force field scoring.Molecular immunology · 2018Article
- Immunogenic peptide discovery in cancer genomes.Current opinion in genetics & development · 2015Review
- Genome-wide structural modelling of TCR-pMHC interactions.BMC genomics · 2013Article
- DelPhi Web Server: A comprehensive online suite for electrostatic calculations of biological macromolecules and their complexes.Communications in computational physics · 2013Article
Corrections and comments
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
One of the most adaptive immune responses is triggered by specific T-cell receptors (TCR) binding to peptide-major histocompatibility complexes (pMHC). Despite the availability of many prediction servers to identify peptides binding to MHC, these servers are often lacking in peptide-TCR interactions and detailed atomic interacting models. PAComplex is the first web server investigating both pMHC and peptide-TCR interfaces to infer peptide antigens and homologous peptide antigens of a query. This server first identifies significantly similar TCR-pMHC templates (joint Z-value ≥ 4.0) of the query by using antibody-antigen and protein-protein interacting scoring matrices for peptide-TCR and pMHC interfaces, respectively. PAComplex then identifies the homologous peptide antigens of these hit templates from complete pathogen genome databases (≥10(8) peptide candidates from 864,628 protein sequences of 389 pathogens) and experimental peptide databases (80,057 peptides in 2287 species). Finally, the server outputs peptide antigens and homologous peptide antigens of the query and displays detailed interacting models (e.g. hydrogen bonds and steric interactions in two interfaces) of hitTCR-pMHC templates. Experimental results demonstrate that the proposed server can achieve high prediction accuracy and offer potential peptide antigens across pathogens. We believe that the server is able to provide valuable insights for the peptide vaccine and MHC restriction. The PAComplex sever is available at http://PAcomplex.life.nctu.edu.tw.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.