FRINK Linked Data Fragments server

Matches in SemOpenAlex for { <https://semopenalex.org/work/W4386979606> ?p ?o ?g. }

• W4386979606 abstract "Abstract Motivation Swine leukocyte antigens (SLAs) (i.e. swine major histocompatibility complex proteins) conduct a fundamental role in swine immunity. To generate a protective vaccine across an outbred species, such as pigs, it is critical that epitopes that bind to diverse SLA alleles are used in the vaccine development process. We introduced a new strategy for epitope prediction. Results We employed molecular dynamics simulation to identify key amino acids for interactions with epitopes. We developed an algorithm wherein each SLA-1 is compared to a crystalized reference allele with unique weighting for non-conserved amino acids based on R group and position. We then performed homology modeling and electrostatic contact mapping to visualize how relatively small changes in sequences impacted the charge distribution in the binding site. We selected eight diverse SLA-1 alleles and performed homology modeling followed, by protein–peptide docking and binding affinity analyses, to identify porcine reproductive and respiratory syndrome virus matrix protein epitopes that bind with high affinity to these alleles. We also performed docking analysis on the epitopes identified as strong binders using NetMHCpan 4.1. Epitopes predicted to bind to our eight SLA-1 alleles had equivalent or higher energetic interactions than those predicted to bind to the NetMHCpan 4.1 allele repertoire. This approach of selecting diverse SLA-1 alleles, followed by homology modeling, and docking simulations, can be used as a novel strategy for epitope prediction that complements other available tools and is especially useful when available tools do not offer a prediction for SLAs/major histocompatibility complex. Availability and implementation The data underlying this article are available in the online Supplementary Material." @default.
• W4386979606 created "2023-09-24" @default.
• W4386979606 creator A5002970194 @default.
• W4386979606 creator A5067934760 @default.
• W4386979606 creator A5069325607 @default.
• W4386979606 date "2023-09-22" @default.
• W4386979606 modified "2023-10-07" @default.
• W4386979606 title "Using a novel structure/function approach to select diverse swine major histocompatibility complex 1 alleles to predict epitopes for vaccine development" @default.
• W4386979606 cites W1031578623 @default.
• W4386979606 cites W1938743025 @default.
• W4386979606 cites W1948562438 @default.
• W4386979606 cites W1985081769 @default.
• W4386979606 cites W1991542542 @default.
• W4386979606 cites W2004902129 @default.
• W4386979606 cites W2019711015 @default.
• W4386979606 cites W2024150829 @default.
• W4386979606 cites W2034694458 @default.
• W4386979606 cites W2035266068 @default.
• W4386979606 cites W2057477511 @default.
• W4386979606 cites W2060872117 @default.
• W4386979606 cites W2067174909 @default.
• W4386979606 cites W2081693079 @default.
• W4386979606 cites W2086480198 @default.
• W4386979606 cites W2095036253 @default.
• W4386979606 cites W2110574412 @default.
• W4386979606 cites W2110694683 @default.
• W4386979606 cites W2128572087 @default.
• W4386979606 cites W2142739377 @default.
• W4386979606 cites W2147640195 @default.
• W4386979606 cites W2154019529 @default.
• W4386979606 cites W2164507619 @default.
• W4386979606 cites W2171268876 @default.
• W4386979606 cites W2271914738 @default.
• W4386979606 cites W2399270745 @default.
• W4386979606 cites W2466210007 @default.
• W4386979606 cites W2530596726 @default.
• W4386979606 cites W2555870966 @default.
• W4386979606 cites W2731784911 @default.
• W4386979606 cites W2737053629 @default.
• W4386979606 cites W2799876761 @default.
• W4386979606 cites W2804822363 @default.
• W4386979606 cites W2896801517 @default.
• W4386979606 cites W2903373249 @default.
• W4386979606 cites W2918013093 @default.
• W4386979606 cites W2981561147 @default.
• W4386979606 cites W2987107292 @default.
• W4386979606 cites W2987335406 @default.
• W4386979606 cites W2995039599 @default.
• W4386979606 cites W2999562335 @default.
• W4386979606 cites W3024570138 @default.
• W4386979606 cites W3083804123 @default.
• W4386979606 cites W3160293921 @default.
• W4386979606 cites W3185197558 @default.
• W4386979606 cites W3215519285 @default.
• W4386979606 cites W4212967725 @default.
• W4386979606 doi "https://doi.org/10.1093/bioinformatics/btad590" @default.
• W4386979606 hasPubMedId "https://pubmed.ncbi.nlm.nih.gov/37740287" @default.
• W4386979606 hasPublicationYear "2023" @default.
• W4386979606 type Work @default.
• W4386979606 citedByCount "0" @default.
• W4386979606 crossrefType "journal-article" @default.
• W4386979606 hasAuthorship W4386979606A5002970194 @default.
• W4386979606 hasAuthorship W4386979606A5067934760 @default.
• W4386979606 hasAuthorship W4386979606A5069325607 @default.
• W4386979606 hasBestOaLocation W43869796061 @default.
• W4386979606 hasConcept C104317684 @default.
• W4386979606 hasConcept C147483822 @default.
• W4386979606 hasConcept C159110408 @default.
• W4386979606 hasConcept C165525559 @default.
• W4386979606 hasConcept C169627665 @default.
• W4386979606 hasConcept C180754005 @default.
• W4386979606 hasConcept C181199279 @default.
• W4386979606 hasConcept C188280979 @default.
• W4386979606 hasConcept C195616568 @default.
• W4386979606 hasConcept C207936829 @default.
• W4386979606 hasConcept C41685203 @default.
• W4386979606 hasConcept C515207424 @default.
• W4386979606 hasConcept C54355233 @default.
• W4386979606 hasConcept C55493867 @default.
• W4386979606 hasConcept C70721500 @default.
• W4386979606 hasConcept C71924100 @default.
• W4386979606 hasConcept C86803240 @default.
• W4386979606 hasConceptScore W4386979606C104317684 @default.
• W4386979606 hasConceptScore W4386979606C147483822 @default.
• W4386979606 hasConceptScore W4386979606C159110408 @default.
• W4386979606 hasConceptScore W4386979606C165525559 @default.
• W4386979606 hasConceptScore W4386979606C169627665 @default.
• W4386979606 hasConceptScore W4386979606C180754005 @default.
• W4386979606 hasConceptScore W4386979606C181199279 @default.
• W4386979606 hasConceptScore W4386979606C188280979 @default.
• W4386979606 hasConceptScore W4386979606C195616568 @default.
• W4386979606 hasConceptScore W4386979606C207936829 @default.
• W4386979606 hasConceptScore W4386979606C41685203 @default.
• W4386979606 hasConceptScore W4386979606C515207424 @default.
• W4386979606 hasConceptScore W4386979606C54355233 @default.
• W4386979606 hasConceptScore W4386979606C55493867 @default.
• W4386979606 hasConceptScore W4386979606C70721500 @default.
• W4386979606 hasConceptScore W4386979606C71924100 @default.
• W4386979606 hasConceptScore W4386979606C86803240 @default.
• W4386979606 hasFunder F4320310866 @default.

• next