ArticleBioinformatics (Oxford, England)2017
Cross-React: a new structural bioinformatics method for predicting allergen cross-reactivity.
Article in Bioinformatics (Oxford, England), 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed.
- Identification of dominant peptide epitopes and antibody response to the spike protein of SARS-CoV-2.Frontiers in cellular and infection microbiology · 2025Article
- Structure-based epitope prediction and assessment of cross-reactivity of Myrmecia pilosula venom-specific IgE and recombinant Sol g proteins (Solenopsis geminata).Scientific reports · 2024Article
- A systematic review of allergen cross-reactivity: Translating basic concepts into clinical relevance.The journal of allergy and clinical immunology. Global · 2024Review
- Article
- PoSSuM v.3: A Major Expansion of the PoSSuM Database for Finding Similar Binding Sites of Proteins.Journal of chemical information and modeling · 2023Article
- The updated Structural Database of Allergenic Proteins (SDAP 2.0) provides 3D models for allergens and incorporated bioinformatics tools.The journal of allergy and clinical immunology. Global · 2023Article
- Sensitization patterns of plant panallergens in Georgian allergic population from the molecular perspective.Postepy dermatologii i alergologii · 2023Article
- Multi-omics research on common allergens during the ripening of pollen and poplar flocs ofFrontiers in plant science · 2023Article
- Protein-protein interaction prediction methods: from docking-based to AI-based approaches.Biophysical reviews · 2022Review
- Detection of cell markers from single cell RNA-seq with sc2marker.BMC bioinformatics · 2022Article
- Spike-based COVID-19 immunization increases antibodies to nucleocapsid antigen.Translational research : the journal of laboratory and clinical medicine · 2022Article
- MatchTope: A tool to predict the cross reactivity of peptides complexed with Major Histocompatibility Complex I.Frontiers in immunology · 2022Article
- ProAll-D: protein allergen detection using long short term memory - a deep learning approach.ADMET & DMPK · 2022Article
- Intrabody-Induced Cell Death by Targeting the T. brucei Cytoskeletal ProteinMicrobiology spectrum · 2021Article
- The importance of the 2S albumins for allergenicity and cross-reactivity of peanuts, tree nuts, and sesame seeds.The Journal of allergy and clinical immunology · 2021Review
- Identification and biochemical characterization of Asp t 36, a new fungal allergen from Aspergillus terreus.The Journal of biological chemistry · 2020Article
- Heat-Stable Hazelnut Profilin: Molecular Dynamics Simulations and Immunoinformatics Analysis.Polymers · 2020Article
- AllerCatPro-prediction of protein allergenicity potential from the protein sequence.Bioinformatics (Oxford, England) · 2019Article
- Identification of relevant regions on structural and nonstructural proteins ofNew microbes and new infections · 2019Article
- Distinguishing allergens from non-allergenic homologues using Physical-Chemical Property (PCP) motifs.Molecular immunology · 2018Article
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2 authors.
Funding
Abstract
The phenomenon of cross-reactivity between allergenic proteins plays an important role to understand how the immune system recognizes different antigen proteins. Allergen proteins are known to cross-react if their sequence comparison shows a high sequence identity which also implies that the proteins have a similar 3D fold. In such cases, linear sequence alignment methods are frequently used to predict cross-reactivity between allergenic proteins. However, the prediction of cross-reactivity between distantly related allergens continues to be a challenging task. To overcome this problem, we developed a new structure-based computational method, Cross-React, to predict cross-reactivity between allergenic proteins available in the Structural Database of Allergens (SDAP). Our method is based on the hypothesis that we can find surface patches on 3D structures of potential allergens with amino acid compositions similar to an epitope in a known allergen. We applied the Cross-React method to a diverse set of seven allergens, and successfully identified several cross-reactive allergens with high to moderate sequence identity which have also been experimentally shown to cross-react. Based on these findings, we suggest that Cross-React can be used as a predictive tool to assess protein allergenicity and cross-reactivity. Availability and Implementation: : Cross-React is available at: http://curie.utmb.edu/Cross-React.html. Contact: ssnegi@utmb.edu.
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