ArticleBioinformatics (Oxford, England)2007
Modeling the adaptive immune system: predictions and simulations.
Article in Bioinformatics (Oxford, England), 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 53 papers.
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The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
53 citing papers in PubMed.
- Multimodal learning on heterogeneous subgraphs and LLMs representation for MHC-peptide binding affinity prediction.BMC bioinformatics · 2026Article
- Deep learning of antibody epitopes using positional permutation vectors.Computational and structural biotechnology journal · 2024Article
- Article
- Prediction of B cell epitopes in proteins using a novel sequence similarity-based method.Scientific reports · 2022Article
- Predicting epitopes for vaccine development using bioinformatics tools.Therapeutic advances in vaccines and immunotherapy · 2022Review
- Engineering neoantigen vaccines to improve cancer personalized immunotherapy.International journal of biological sciences · 2022Review
- Promises and challenges of adoptive T-cell therapies for solid tumours.British journal of cancer · 2021Review
- Article
- Article
- Determinants for Neoantigen Identification.Frontiers in immunology · 2019Review
- Increased herpes zoster risk associated with poor HLA-A immediate early 62 protein (IE62) affinity.Immunogenetics · 2018Article
- Chemotherapy weakly contributes to predicted neoantigen expression in ovarian cancer.BMC cancer · 2018Article
- APOBEC3G Regulation of the Evolutionary Race Between Adaptive Immunity and Viral Immune Escape Is Deeply Imprinted in the HIV Genome.Frontiers in immunology · 2018Article
- Identification of BALB/c Immune Markers Correlated with a Partial Protection to Leishmania infantum after Vaccination with a Rationally Designed Multi-epitope Cysteine Protease A Peptide-Based Nanovaccine.PLoS neglected tropical diseases · 2017Article
- The Effective Regulation of Pro- and Anti-inflammatory Cytokines Induced by Combination of PA-MSHA and BPIFB1 in Initiation of Innate Immune Responses.Open medicine (Warsaw, Poland) · 2017Article
- A Poly(Lactic-Frontiers in immunology · 2017Article
- Endogenous Neoantigen-Specific CD8 T Cells Identified in Two Glioblastoma Models Using a Cancer Immunogenomics Approach.Cancer immunology research · 2016Article
- Immunoinformatics and epitope prediction in the age of genomic medicine.Genome medicine · 2015Review
- Tumor neoantigens: building a framework for personalized cancer immunotherapy.The Journal of clinical investigation · 2015Review
- Immunogenic peptide discovery in cancer genomes.Current opinion in genetics & development · 2015Review
Corrections and comments
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
motivationImmunological bioinformatics methods are applicable to a broad range of scientific areas. The specifics of how and where they might be implemented have recently been reviewed in the literature. However, the background and concerns for selecting between the different available methods have so far not been adequately covered. SUMMARY: Before using predictions systems, it is necessary to not only understand how the methods are constructed but also their strength and limitations. The prediction systems in humoral epitope discovery are still in their infancy, but have reached a reasonable level of predictive strength. In cellular immunology, MHC class I binding predictions are now very strong and cover most of the known HLA specificities. These systems work well for epitope discovery, and predictions of the MHC class I pathway have been further improved by integration with state-of-the-art prediction tools for proteasomal cleavage and TAP binding. By comparison, class II MHC binding predictions have not developed to a comparable accuracy level, but new tools have emerged that deliver significantly improved predictions not only in terms of accuracy, but also in MHC specificity coverage. Simulation systems and mathematical modeling are also now beginning to reach a level where these methods will be able to answer more complex immunological questions.
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Registered trials
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.