Scopus İndeksli Yayınlar Koleksiyonu / Scopus Indexed Publications Collection
Permanent URI for this collectionhttps://hdl.handle.net/11147/7148
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Article Citation - WoS: 14Citation - Scopus: 14Polythiophene Derivative on Quartz Resonators for Mirna Capture and Assay(Royal Society of Chemistry, 2015) Palaniappan, Al.; Cheema, Jamal Ahmed; Rajwar, Deepa; Ammanath, Gopal; Xiaohu, Liu; Seng Koon, Lim; Yi, Wang; Yıldız, Ümit Hakan; Liedberg, BoA novel approach for miRNA assay using a cationic polythiophene derivative, poly[3-(3′-N,N,N-triethylamino-1′-propyloxy)-4-methyl-2,5-thiophene hydrobromide] (PT), immobilized on a quartz resonator is proposed. The cationic PT enables capturing of all RNA sequences in the sample matrix via electrostatic interactions, resulting in the formation of PT-RNA duplex structures on quartz resonators. Biotinylated peptide nucleic acid (b-PNA) sequences are subsequently utilized for the RNA assay, upon monitoring the PT-RNA-b-PNA triplex formation. Signal amplification is achieved by anchoring avidin coated nanoparticles to b-PNA in order to yield responses at clinically relevant concentration regimes. Unlike conventional nucleic acid assay methodologies that usually quantify a specific sequence of RNA, the proposed approach enables the assay of any RNA sequence in the sample matrix upon hybridization with a PNA sequence complementary to the RNA of interest. As an illustration, successful detection of mir21, (a miRNA sequence associated with lung cancer) is demonstrated with a limit of detection of 400 pM. Furthermore, precise quantification of mir21 in plasma samples is demonstrated without requiring PCR and sophisticated instrumentation.Article Citation - WoS: 20Citation - Scopus: 22A New Proton Sponge Polymer Synthesized by Raft Polymerization for Intracellular Delivery of Biotherapeutics(Royal Society of Chemistry, 2014) Kurtuluş, Işıl; Yılmaz, Gökhan; Üçüncü, Muhammed; Emrullahoğlu, Mustafa; Becer, C. Remzi; Bulmuş, VolgaA spermine-like polymer was synthesized via reversible addition- fragmentation chain transfer polymerization as a potential endosomal escaping agent. A new methacrylate monomer, 2-((tert-butoxycarbonyl)(2-((tert- butoxycarbonyl)amino)ethyl)amino)ethylmethacrylate (BocAEAEMA), was prepared and then polymerized via RAFT polymerization at constant monomer or initiator concentration at varying [M]/[R]/[I] ratios. In all polymerizations, ln[M] 0/[M] increased linearly with time. The linear increase in M n with monomer conversion was also observed. P(BocAEAEMA)s with controlled molecular weights and narrow molecular weight distributions were obtained. The in vitro cytotoxicity and proton sponge capacity of deprotected polymers P(AEAEMA) were investigated in comparison with a widely used endosomal-disruptive polymer, PEI. P(AEAEMA)s were found to possess proton sponge capacity comparable with PEI. More importantly, P(AEAEMA)s were not toxic on NIH 3T3 cells at concentrations where PEI (25 kDa) was highly toxic (0.4 μM and above). P(AEAEMA) was able to fully condense a DNA fragment at nitrogen/phosphate (N/P) ratios of 10 and above, as evidenced by gel electrophoresis. P(BocAEAEMA) was then chain-extended with a model sugar monomer, mannose-acrylate (ManAc), to yield P(AEAEMA)-b-P(ManAc) block copolymers, to potentially provide cell-recognition ability to the polyplex particles. Although the presence of the P(ManAc) block partially inhibited the interaction of P(AEAEMA) with DNA, P(AEAEMA)13-b-P(ManAc)7 was able to form polyplexes with DNA at N/P ratios ranging between 20/1 and 2/1. Dynamic light scattering measurements showed that while P(AEAEMA) (M n = 5.5 kDa) and DNA formed polyplex particles having a hydrodynamic diameter (Dh) of 125 ± 51 nm, P(AEAEMA)13-b- P(ManAc)7 and DNA formed particles with a smaller Dh of 38 ± 10 nm.Article Citation - WoS: 33Citation - Scopus: 33Folic Acid Modified Clay/Polymer Nanocomposites for Selective Cell Adhesion(Royal Society of Chemistry, 2014) Barlas, Fırat Barış; Ağ Şeleci, Didem; Özkan, Melek; Demir, Bilal; Şeleci, Muharrem; Aydın, Muhammed; Taşdelen, M. A.; Zareie, Hadi M.; Timur, Suna; Özçelik, Serdar; Yağcı, YusufA folic acid (FA) modified poly(epsilon-caprolactone)/clay nanocomposite (PCL/MMT-(CH2CH2OH)2-FA) resulting in selective cell adhesion and proliferation was synthesized and characterized as a cell culture and biosensing platform. For this purpose, first the FA modified clay (MMT-(CH2CH2OH)2-FA) was prepared by treating the organo-modified clay, Cloisite 30B [MMT-(CH2CH 2OH)2] with FA in chloroform at 60°C. Subsequent ring opening polymerization of ε-caprolactone in the presence of tin octoate (Sn(Oct)2) using MMT-(CH2CH2OH)2-FA at 110°C resulted in the formation of MMT-(CH2CH 2OH)2-FA with an exfoliated clay structure. The structures of intermediates and the final nanocomposite were investigated in detail by FT-IR spectral analysis and DSC, TGA, XRD, SEM and AFM measurements. The combination of FA, PCL and clay provides a simple and versatile route to surfaces that allows controlled and selective cell adhesion and proliferation. FA receptor-positive HeLa and negative A549 cells were used to prove the selectivity of the modified surfaces. Both microscopy and electrochemical sensing techniques were applied to show the differences in cell adherence on the modified and pristine clay platforms. This approach is expected to be adapted into various bio-applications such as 'cell culture on chip', biosensors and design of tools for targeted diagnosis or therapy.Article Citation - WoS: 52Citation - Scopus: 53Raft Polymerization Mediated Bioconjugation Strategies(Royal Society of Chemistry, 2011) Bulmuş, VolgaThis review aims to highlight the use of RAFT polymerization in the synthesis of polymer bioconjugates. It covers two main bioconjugation strategies using the RAFT process: (i) post-polymerization bioconjugations using pre-synthesized reactive polymers, and (ii) bioconjugations via in situ polymerization using biomolecule-modified monomers or chain transfer agents. © 2011 The Royal Society of Chemistry.