FRINK Linked Data Fragments server

Matches in SemOpenAlex for { <https://semopenalex.org/work/W4312131613> ?p ?o ?g. }

• W4312131613 endingPage "1111" @default.
• W4312131613 startingPage "1111" @default.
• W4312131613 abstract "<ns3:p><ns3:bold>Background:</ns3:bold> Considering protein mutations in their biological context is essential for understanding their functional impact, interpretation of high-dimensional datasets and development of effective targeted therapies in personalized medicine.</ns3:p><ns3:p> <ns3:bold>Methods:</ns3:bold> We combined the curated knowledge of biochemical reactions from Reactome with the analysis of interaction-mediating 3D interfaces from Mechismo. In addition, we provided a software tool for users to explore and browse the analysis results in a multi-scale perspective starting from pathways and reactions to protein-protein interactions and protein 3D structures.</ns3:p><ns3:p> <ns3:bold>Results:</ns3:bold> We analyzed somatic mutations from TCGA, revealing several significantly impacted reactions and pathways in specific cancer types. We found examples of genes not yet listed as oncodrivers, whose rare mutations were predicted to affect cancer processes similarly to known oncodrivers. Some identified processes lack any known oncodrivers, which suggests potentially new cancer-related processes (e.g. complement cascade reactions). Furthermore, we found that mutations perturbing certain processes are significantly associated with distinct phenotypes (i.e. survival time) in specific cancer types (e.g. PIK3CA centered pathways in LGG and UCEC cancer types), suggesting the translational potential of our approach for patient stratification. Our analysis also uncovered several druggable processes (e.g. GPCR signalling pathways) containing enriched reactions, providing support for new off-label therapeutic options.</ns3:p><ns3:p> <ns3:bold>Conclusions: </ns3:bold>In summary, we have established a multi-scale approach to study genetic variants based on protein-protein interaction 3D structures. Our approach is different from previously published studies in its focus on biochemical reactions and can be applied to other data types (e.g. post-translational modifications) collected for many types of disease.</ns3:p>" @default.
• W4312131613 created "2023-01-04" @default.
• W4312131613 creator A5006718188 @default.
• W4312131613 creator A5045103162 @default.
• W4312131613 creator A5056063291 @default.
• W4312131613 creator A5069978192 @default.
• W4312131613 creator A5075883686 @default.
• W4312131613 date "2022-12-12" @default.
• W4312131613 modified "2023-09-30" @default.
• W4312131613 title "Leveraging biochemical reactions to unravel functional impacts of cancer somatic variants affecting protein interaction interfaces" @default.
• W4312131613 cites W1876009826 @default.
• W4312131613 cites W1935434993 @default.
• W4312131613 cites W1940319397 @default.
• W4312131613 cites W1956577542 @default.
• W4312131613 cites W2039473152 @default.
• W4312131613 cites W2050200982 @default.
• W4312131613 cites W2058539819 @default.
• W4312131613 cites W2062533676 @default.
• W4312131613 cites W2065121554 @default.
• W4312131613 cites W2097508475 @default.
• W4312131613 cites W2104300069 @default.
• W4312131613 cites W2108377388 @default.
• W4312131613 cites W2110065044 @default.
• W4312131613 cites W2121906867 @default.
• W4312131613 cites W2139994096 @default.
• W4312131613 cites W2144954642 @default.
• W4312131613 cites W2158714788 @default.
• W4312131613 cites W2168303063 @default.
• W4312131613 cites W2230320310 @default.
• W4312131613 cites W2529097733 @default.
• W4312131613 cites W2593881435 @default.
• W4312131613 cites W2782153240 @default.
• W4312131613 cites W2789454947 @default.
• W4312131613 cites W2796408191 @default.
• W4312131613 cites W2894573839 @default.
• W4312131613 cites W2950796639 @default.
• W4312131613 cites W2950945059 @default.
• W4312131613 cites W2962854624 @default.
• W4312131613 cites W3004883393 @default.
• W4312131613 cites W3008303614 @default.
• W4312131613 cites W3138855639 @default.
• W4312131613 cites W3199799076 @default.
• W4312131613 cites W4231254854 @default.
• W4312131613 cites W4288076435 @default.
• W4312131613 cites W4310791699 @default.
• W4312131613 doi "https://doi.org/10.12688/f1000research.74395.3" @default.
• W4312131613 hasPublicationYear "2022" @default.
• W4312131613 type Work @default.
• W4312131613 citedByCount "0" @default.
• W4312131613 crossrefType "journal-article" @default.
• W4312131613 hasAuthorship W4312131613A5006718188 @default.
• W4312131613 hasAuthorship W4312131613A5045103162 @default.
• W4312131613 hasAuthorship W4312131613A5056063291 @default.
• W4312131613 hasAuthorship W4312131613A5069978192 @default.
• W4312131613 hasAuthorship W4312131613A5075883686 @default.
• W4312131613 hasBestOaLocation W43121316131 @default.
• W4312131613 hasConcept C104317684 @default.
• W4312131613 hasConcept C10679952 @default.
• W4312131613 hasConcept C132379496 @default.
• W4312131613 hasConcept C151730666 @default.
• W4312131613 hasConcept C2522874641 @default.
• W4312131613 hasConcept C2776408679 @default.
• W4312131613 hasConcept C2779343474 @default.
• W4312131613 hasConcept C54355233 @default.
• W4312131613 hasConcept C70721500 @default.
• W4312131613 hasConcept C86803240 @default.
• W4312131613 hasConceptScore W4312131613C104317684 @default.
• W4312131613 hasConceptScore W4312131613C10679952 @default.
• W4312131613 hasConceptScore W4312131613C132379496 @default.
• W4312131613 hasConceptScore W4312131613C151730666 @default.
• W4312131613 hasConceptScore W4312131613C2522874641 @default.
• W4312131613 hasConceptScore W4312131613C2776408679 @default.
• W4312131613 hasConceptScore W4312131613C2779343474 @default.
• W4312131613 hasConceptScore W4312131613C54355233 @default.
• W4312131613 hasConceptScore W4312131613C70721500 @default.
• W4312131613 hasConceptScore W4312131613C86803240 @default.
• W4312131613 hasFunder F4320308269 @default.
• W4312131613 hasFunder F4320323054 @default.
• W4312131613 hasFunder F4320337348 @default.
• W4312131613 hasFunder F4320337372 @default.
• W4312131613 hasLocation W43121316131 @default.
• W4312131613 hasLocation W43121316132 @default.
• W4312131613 hasLocation W43121316133 @default.
• W4312131613 hasLocation W43121316134 @default.
• W4312131613 hasLocation W43121316135 @default.
• W4312131613 hasLocation W43121316136 @default.
• W4312131613 hasOpenAccess W4312131613 @default.
• W4312131613 hasPrimaryLocation W43121316131 @default.
• W4312131613 hasRelatedWork W2007112624 @default.
• W4312131613 hasRelatedWork W2099388354 @default.
• W4312131613 hasRelatedWork W2319917948 @default.
• W4312131613 hasRelatedWork W2804171113 @default.
• W4312131613 hasRelatedWork W2928062689 @default.
• W4312131613 hasRelatedWork W2942805943 @default.
• W4312131613 hasRelatedWork W3095231304 @default.
• W4312131613 hasRelatedWork W3158999293 @default.
• W4312131613 hasRelatedWork W3214475573 @default.
• W4312131613 hasRelatedWork W4290613495 @default.

• next