FRINK Linked Data Fragments server

Matches in SemOpenAlex for { <https://semopenalex.org/work/W1963516132> ?p ?o ?g. }

• W1963516132 endingPage "e9272" @default.
• W1963516132 startingPage "e9272" @default.
• W1963516132 abstract "Successful predictions of peptide MHC binding typically require a large set of binding data for the specific MHC molecule that is examined. Structure based prediction methods promise to circumvent this requirement by evaluating the physical contacts a peptide can make with an MHC molecule based on the highly conserved 3D structure of peptide:MHC complexes. While several such methods have been described before, most are not publicly available and have not been independently tested for their performance. We here implemented and evaluated three prediction methods for MHC class II molecules: statistical potentials derived from the analysis of known protein structures; energetic evaluation of different peptide snapshots in a molecular dynamics simulation; and direct analysis of contacts made in known 3D structures of peptide:MHC complexes. These methods are ab initio in that they require structural data of the MHC molecule examined, but no specific peptide:MHC binding data. Moreover, these methods retain the ability to make predictions in a sufficiently short time scale to be useful in a real world application, such as screening a whole proteome for candidate binding peptides. A rigorous evaluation of each methods prediction performance showed that these are significantly better than random, but still substantially lower than the best performing sequence based class II prediction methods available. While the approaches presented here were developed independently, we have chosen to present our results together in order to support the notion that generating structure based predictions of peptide:MHC binding without using binding data is unlikely to give satisfactory results." @default.
• W1963516132 created "2016-06-24" @default.
• W1963516132 creator A5010966529 @default.
• W1963516132 creator A5020171946 @default.
• W1963516132 creator A5023547268 @default.
• W1963516132 creator A5042342143 @default.
• W1963516132 creator A5049078993 @default.
• W1963516132 creator A5049341927 @default.
• W1963516132 creator A5070141127 @default.
• W1963516132 creator A5071462078 @default.
• W1963516132 creator A5075833022 @default.
• W1963516132 creator A5076702280 @default.
• W1963516132 date "2010-02-17" @default.
• W1963516132 modified "2023-10-17" @default.
• W1963516132 title "Limitations of Ab Initio Predictions of Peptide Binding to MHC Class II Molecules" @default.
• W1963516132 cites W1535176600 @default.
• W1963516132 cites W1643563426 @default.
• W1963516132 cites W1759855929 @default.
• W1963516132 cites W1971149989 @default.
• W1963516132 cites W1980744280 @default.
• W1963516132 cites W1990748933 @default.
• W1963516132 cites W1995390574 @default.
• W1963516132 cites W2000588442 @default.
• W1963516132 cites W2001974855 @default.
• W1963516132 cites W2012385803 @default.
• W1963516132 cites W2020384794 @default.
• W1963516132 cites W2021534482 @default.
• W1963516132 cites W2027267610 @default.
• W1963516132 cites W2027288475 @default.
• W1963516132 cites W2029667189 @default.
• W1963516132 cites W2043071727 @default.
• W1963516132 cites W2056538898 @default.
• W1963516132 cites W2056905437 @default.
• W1963516132 cites W2065283382 @default.
• W1963516132 cites W2070521563 @default.
• W1963516132 cites W2077480262 @default.
• W1963516132 cites W2083900229 @default.
• W1963516132 cites W2085902776 @default.
• W1963516132 cites W2093629170 @default.
• W1963516132 cites W2094706980 @default.
• W1963516132 cites W2098781795 @default.
• W1963516132 cites W2098888753 @default.
• W1963516132 cites W2099500226 @default.
• W1963516132 cites W2100350770 @default.
• W1963516132 cites W2105119251 @default.
• W1963516132 cites W2106140689 @default.
• W1963516132 cites W2110694683 @default.
• W1963516132 cites W2125644345 @default.
• W1963516132 cites W2130479394 @default.
• W1963516132 cites W2142739377 @default.
• W1963516132 cites W2144166466 @default.
• W1963516132 cites W2144775933 @default.
• W1963516132 cites W2145126338 @default.
• W1963516132 cites W2149350146 @default.
• W1963516132 cites W2150981663 @default.
• W1963516132 cites W2153153865 @default.
• W1963516132 cites W2157825442 @default.
• W1963516132 cites W2161776897 @default.
• W1963516132 cites W2162166182 @default.
• W1963516132 cites W2163881579 @default.
• W1963516132 cites W2168688111 @default.
• W1963516132 cites W2406012272 @default.
• W1963516132 doi "https://doi.org/10.1371/journal.pone.0009272" @default.
• W1963516132 hasPubMedCentralId "https://www.ncbi.nlm.nih.gov/pmc/articles/2822856" @default.
• W1963516132 hasPubMedId "https://pubmed.ncbi.nlm.nih.gov/20174654" @default.
• W1963516132 hasPublicationYear "2010" @default.
• W1963516132 type Work @default.
• W1963516132 sameAs 1963516132 @default.
• W1963516132 citedByCount "46" @default.
• W1963516132 countsByYear W19635161322012 @default.
• W1963516132 countsByYear W19635161322013 @default.
• W1963516132 countsByYear W19635161322015 @default.
• W1963516132 countsByYear W19635161322016 @default.
• W1963516132 countsByYear W19635161322017 @default.
• W1963516132 countsByYear W19635161322018 @default.
• W1963516132 countsByYear W19635161322019 @default.
• W1963516132 countsByYear W19635161322020 @default.
• W1963516132 countsByYear W19635161322021 @default.
• W1963516132 countsByYear W19635161322022 @default.
• W1963516132 countsByYear W19635161322023 @default.
• W1963516132 crossrefType "journal-article" @default.
• W1963516132 hasAuthorship W1963516132A5010966529 @default.
• W1963516132 hasAuthorship W1963516132A5020171946 @default.
• W1963516132 hasAuthorship W1963516132A5023547268 @default.
• W1963516132 hasAuthorship W1963516132A5042342143 @default.
• W1963516132 hasAuthorship W1963516132A5049078993 @default.
• W1963516132 hasAuthorship W1963516132A5049341927 @default.
• W1963516132 hasAuthorship W1963516132A5070141127 @default.
• W1963516132 hasAuthorship W1963516132A5071462078 @default.
• W1963516132 hasAuthorship W1963516132A5075833022 @default.
• W1963516132 hasAuthorship W1963516132A5076702280 @default.
• W1963516132 hasBestOaLocation W19635161321 @default.
• W1963516132 hasConcept C104397665 @default.
• W1963516132 hasConcept C147483822 @default.
• W1963516132 hasConcept C170627219 @default.
• W1963516132 hasConcept C178790620 @default.
• W1963516132 hasConcept C185592680 @default.
• W1963516132 hasConcept C207936829 @default.

• next