Plasmonic selection of ssDNA aptamers against fibroblast growth factor receptor

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dc.authorid0000-0002-1677-644X
dc.contributor.authorKurt, Hasan
dc.contributor.authorEyüpoğlu, Alp Ertunga
dc.contributor.authorSütlü, Tolga
dc.contributor.authorBudak, Hikmet
dc.contributor.authorYüce, Meral
dc.date.accessioned2019-12-19T07:57:19Z
dc.date.available2019-12-19T07:57:19Z
dc.date.issued2019
dc.departmentİstanbul Medipol Üniversitesi, Mühendislik ve Doğa Bilimleri Fakültesi, Biyomedikal Mühendisliği Bölümü
dc.description.abstractIn this work, we describe the selection of ssDNA aptamers targeting fibroblast growth factor receptor binding protein 3 K650E, which has roles in cell division, growth, and differentiation through the kinase cascade. The selection process was based on the label-free, real-time monitoring of binding interactions by surface plasmon resonance, allowing for convenient manipulation of the selection rounds. Next generation sequencing data provided four major motif families from which nine individual sequences were selected based on their abundance levels. Electrophoretic mobility shift assays revealed binding of the selected aptamers to the target protein without significant interference from fibroblast growth factor receptor binding protein 2, indicating the selectivity of the aptamers. The dissociation constant at equilibrium for the best aptamer candidate, SU-3, was found to be (28.2 ± 19.6) × 10–9 M (n = 5) using a single-cycle kinetic analysis method. Advantages of the experimental setup and potential applications of the selected aptamers are discussed.
dc.description.sponsorshipSabanci Universityen_US
dc.identifier.citationKurt, H., Eyüpoğlu, A. E., Sütlü, T., Budak, H., Yüce, M. (2019). Plasmonic selection of ssDNA aptamers against fibroblast growth factor receptor. ACS Combinatorial Science, 21(8), 578-587. http://dx.doi.org/10.1021/acscombsci.9b00059
dc.identifier.doi10.1021/acscombsci.9b00059
dc.identifier.endpage587
dc.identifier.issn2156-8952
dc.identifier.issn2156-8944
dc.identifier.issue8
dc.identifier.scopusqualityQ1
dc.identifier.startpage578
dc.identifier.urihttp://dx.doi.org/10.1021/acscombsci.9b00059
dc.identifier.urihttps://hdl.handle.net/20.500.12511/4537
dc.identifier.volume21
dc.identifier.wosqualityQ2
dc.indekslendigikaynakWeb of Science
dc.indekslendigikaynakScopus
dc.indekslendigikaynakPubMed
dc.language.isoen
dc.publisherAmerican Chemical Society
dc.relation.ispartofACS Combinatorial Scienceen_US
dc.relation.publicationcategoryMakale - Uluslararası Hakemli Dergi - Kurum Öğretim Elemanı
dc.rightsinfo:eu-repo/semantics/embargoedAccess
dc.subjectAptamer
dc.subjectNext Generation Sequencing
dc.subjectSelex
dc.subjectssDNA
dc.subjectSurface Plasmon Resonance
dc.titlePlasmonic selection of ssDNA aptamers against fibroblast growth factor receptor
dc.typeArticle

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