Article
Chemistry, Multidisciplinary
Xinpei Dai, Xiaoliang Chen, Xinxin Jing, Yinan Zhang, Muchen Pan, Mingqiang Li, Qian Li, Pi Liu, Chunhai Fan, Xiaoguo Liu
Summary: Integrating dissimilar materials at the nanoscale is crucial for modern electronics and optoelectronics. Researchers have developed a DNA origami-encoded strategy for integrating silica-metal heterostructures and revealed the underlying mechanisms. By programming the densities and lengths of protruding dsDNA strands on DNA origami, high site-addressability of material deposition was achieved.
ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
(2022)
Article
Nanoscience & Nanotechnology
Alexander L. Danesi, Dimitra Athanasiadou, Abdulmateen O. Aderinto, Prakash Rasie, Leo Y. T. Chou, Karina M. M. Carneiro
Summary: The study demonstrates that DNA nanostructures can promote site-specific calcium phosphate formation under mineralizing conditions, resulting in amorphous calcium phosphate or hydroxyapatite. This finding sheds light on the mechanisms of crystal nucleation and growth in mineralized tissues, providing insights for mineralized tissue regeneration strategies.
ACS APPLIED MATERIALS & INTERFACES
(2022)
Article
Chemistry, Multidisciplinary
Shanshan Wu, Meizhou Zhang, Jie Song, Stefan Weber, Xiaoguo Liu, Chunhai Fan, Yuzhou Wu
Summary: Calcium phosphate is the most abundant biomineral in hard tissues, and the rational design and fabrication of Ca-P materials have been achieved through a particle attachment process, inheriting structural details encoded by DNA templates to enhance mechanical strength while preserving synthetic functionalities on the DNA surface.
Article
Chemistry, Multidisciplinary
Joshua A. Johnson, Vasiliki Kolliopoulos, Carlos E. Castro
Summary: Simultaneous self-assembly of two distinct DNA origami nanostructures folded with the same scaffold strand was achieved in a single pot by adjusting concentrations of competing strands. The relative yields were correlated well with folding kinetics of individual structures, facilitating efficient fabrication of multi-structure systems and materials.
CHEMICAL COMMUNICATIONS
(2021)
Article
Chemistry, Multidisciplinary
Tianqing Zhang, Bryan Wei
Summary: Sequence complementarity is crucial in designing specific recognition among DNA nanostructure units through sticky-end cohesion. Binding orthogonality is usually achieved through sticky-end pairs with different sequences. This study explores orthogonal recognition of synthetic DNA constructs solely based on configurational match, by restricting the diversity of sticky-end sequences to a fixed C-G pair. Comprehensive investigations of 2D tessellation and 3D crystallization demonstrate the ability of this new configuration-specific sticky-end cohesion to program specific and precise molecular recognition for high-order DNA self-assembly.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2022)
Article
Chemistry, Multidisciplinary
Joschka Hellmeier, Rene Platzer, Vanessa Muehlgrabner, Magdalena C. Schneider, Elke Kurz, Gerhard J. Schuetz, Johannes B. Huppa, Eva Sevcsik
Summary: DNA origami structures provide flexible scaffolds for organizing biomolecules with nanometer precision, but functionalizing them with proteins while maintaining stoichiometry and protein functionality remains challenging. This study systematically evaluated different strategies for site-specific decoration of DNA origami structures, with a focus on efficiency, stoichiometry, and protein functionality. The study found that using charge-neutral peptide nucleic acid emerged as the best strategy for achieving high yield and preserving protein functionality.
Article
Chemistry, Multidisciplinary
Michael Erkelenz, Richard Kosinski, Oliver Sritharan, Helene Giesler, Barbara Sacca, Sebastian Schlucker
Summary: In this study, bare gold nanocubes and nanospheres of different sizes were incorporated into a rationally designed 3D DNA origami box. The encapsulated particles exhibit a gold surface that can be functionalized for specific applications in molecular plasmonics such as SERS or SEF.
CHEMICAL COMMUNICATIONS
(2021)
Article
Chemistry, Physical
Denis Selnihhin, Kim Mortensen, Jannik B. Larsen, Jens B. Simonsen, Finn Skou Pedersen
Summary: In this study, DNA-origami nanobeads were designed and constructed using DNA nanotechnology for fluorescence/antigen quantification in flow cytometry. The effectiveness of the bead design was verified through various microscopy techniques. The results demonstrate that DNA beads can accelerate quantitative studies of the biology of individual particles in flow cytometry.
Article
Nanoscience & Nanotechnology
Sonja Schmid, Pierre Stoemmer, Hendrik Dietz, Cees Dekker
Summary: The NEOtrap, formed by a DNA-origami sphere docked onto a passivated solid-state nanopore, allows the trapping and observation of single proteins for hours with high sensitivity and resolution. It can distinguish between nucleotide-dependent protein conformations and is a promising tool for studying the molecular kinetics underlying protein function.
NATURE NANOTECHNOLOGY
(2021)
Article
Chemistry, Multidisciplinary
Shuoxing Jiang, Nibedita Pal, Fan Hong, Nour Eddine Fahmi, Huiyu Hu, Matthew Vrbanac, Hao Yan, Nils G. Walter, Yan Liu
Summary: Controlling the nucleation step of a self-assembly system is crucial for engineering structural complexity and dynamic behaviors. This study investigates the inherent dynamics of three general nucleation modes in DNA tile-based self-assembly and reveals temperature-dependent kinetics and a nucleation-growth model are key factors. The assembly of tiles can be externally regulated by the hosting frame and an UV-responsive trigger, offering a general strategy for controlling the self-assembly process.
Article
Chemistry, Multidisciplinary
Sandeepa K. Vittala, Yumeng Zhao, Da Han
Summary: This report demonstrates a method of bridging two linear DNA origami nanostructures using silver nanowires, which can be used to integrate functional components and bottom-up assembly for nanoelectronic applications.
Article
Chemistry, Multidisciplinary
Ulrich Kemper, Jingjing Ye, David Poppitz, Roger Glaeser, Ralf Seidel
Summary: DNA origami molds enable controlled growth of metallic nanoparticles, but it is currently limited to gold and silver. This study demonstrates the fabrication of linear palladium nanostructures with controlled lengths and patterns. By developing a synthesis procedure of palladium nanoparticles using BSPP as a reductant and stabilizer, an efficient functionalization protocol with single-stranded DNA is established. Attaching functionalized particles to complementary DNA strands inside DNA molds allows specific seeded palladium deposition, resulting in rod-like palladium nanoparticles with grainy morphology.
Article
Multidisciplinary Sciences
Ashwin Gopinath, Chris Thachuk, Anya Mitskovets, Harry A. Atwater, David Kirkpatrick, Paul W. K. Rothemund
Summary: DNA origami is a modular platform that combines molecular and colloidal components to create optical, electronic, and biological devices. By utilizing a unique energy landscape property, these devices can be accurately aligned and oriented. The optimization of device performance through orientation was demonstrated, as well as large-scale integration of DNA origami technology.
Article
Chemistry, Multidisciplinary
Dulashani R. Ranasinghe, Gregory Doerk, Basu R. Aryal, Chao Pang, Robert C. Davis, John N. Harb, Adam T. Woolley
Summary: Directed placement of DNA origami on gold dots using block copolymer self-assembly was demonstrated. A pattern transfer method involving PMMA etching and oxygen plasma etching was used to create a gold dot array. Different ligand functionalization and DNA hybridization methods were evaluated for attaching DNA origami to the nanodots. The study contributes to the understanding of DNA-templated assembly and shows potential for creating nanodevices in future nanoelectronics.
Article
Chemistry, Analytical
Quanjing Zhu, Peng Yang, Chuiyu Zhu, Yong He, Lichao Fang, Hui Huang, Chenghong Li, Lina Wang, Jun Deng, Yan Li, Junsong Zheng
Summary: In this study, a wavelength-resolved photoelectrochemical (PEC) biosensor based on cascade signal amplification reactions was proposed for simultaneous analysis of m(6)A-RNA and m(5)C-RNA modifications. The biosensor exhibited excellent analytical performances and opened new possibilities for epigenetic research and the diagnosis and treatment of methylation-related diseases.
SENSORS AND ACTUATORS B-CHEMICAL
(2022)
Article
Chemistry, Multidisciplinary
Bibek Uprety, John Jensen, Basu R. Aryal, Robert C. Davis, Adam T. Woolley, John N. Harb
Article
Chemistry, Multidisciplinary
Bibek Uprety, Tyler Westover, Michael Stoddard, Kamron Brinkerhoff, John Jensen, Robert C. Davis, Adam T. Woolley, John N. Harb
Article
Chemistry, Physical
Anthony C. Pearson, Jianfei Liu, Elisabeth Pound, Bibek Uprety, Adam T. Woolley, Robert C. Davis, John N. Harb
JOURNAL OF PHYSICAL CHEMISTRY B
(2012)
Article
Chemistry, Multidisciplinary
Jianfei Liu, Bibek Uprety, Shailendra Gyawali, Adam T. Woolley, Nosang V. Myung, John N. Harb
Article
Chemistry, Multidisciplinary
Yanli Geng, Anthony C. Pearson, Elisabeth P. Gates, Bibek Uprety, Robert C. Davis, John N. Harb, Adam T. Woolley
Article
Chemistry, Multidisciplinary
Basu R. Aryal, Tyler R. Westover, Dulashani R. Ranasinghe, Diana G. Calvopina, Bibek Uprety, John N. Harb, Robert C. Davis, Adam T. Woolley
Article
Chemistry, Multidisciplinary
Tyler R. Westover, Basu R. Aryal, Dulashani R. Ranasinghe, Bibek Uprety, John N. Harb, Adam T. Woolley, Robert C. Davis
Article
Chemistry, Physical
Bhim P. Kafle, Sijan Devkota, Bibek Uprety, Kyun Y. Park, Niroj Basnet, Aavash Shakya, Santosh K. Tiwari
ACS APPLIED ENERGY MATERIALS
(2020)
Article
Green & Sustainable Science & Technology
Sijan Devkota, Ramesh Pokhrel, Bhawana Rayamajhi, Bibek Uprety
Summary: This study presents the feasibility of establishing a CO2 capture plant in Nepal through detailed design, cost estimation, and sensitivity analysis. The findings show that the profitability of the CO2 capture plant is highly sensitive to electricity costs, presenting a huge opportunity for development in Nepal.
INTERNATIONAL JOURNAL OF GREENHOUSE GAS CONTROL
(2021)
Article
Chemistry, Physical
Sijan Devkota, Sagar Ban, Rakesh Shrestha, Bibek Uprety
Summary: This study presents a detailed analysis of establishing a hydropower based green ammonia plant for urea manufacturing in Nepal. The economic analysis shows a profitability with ROI and IRR of 38% and 26%, respectively, and a payback period of three years. Sensitivity analysis reveals a strong impact of electricity cost on the electrolyzer and ammonia synthesis unit, offering a great opportunity for Nepal. Uncertainty analysis using Monte Carlo method indicates a possible minimum cost of $2340/ton for hydrogen and $418/ton for ammonia. This study highlights the potential of hydropower based ammonia synthesis and provides valuable insights for policymakers.
INTERNATIONAL JOURNAL OF HYDROGEN ENERGY
(2023)
Article
Energy & Fuels
Manish Sharma Timilsina, Subhadip Sen, Bibek Uprety, Vashishtha B. Patel, Prateek Sharma, Pratik N. Sheth
Summary: This study proposes a novel approach using machine learning techniques to predict the higher heating value (HHV) of waste materials. The results show that increased carbon and hydrogen content leads to higher HHV, while increased oxygen and ash content results in decreased HHV. The prediction models demonstrate high accuracy and have practical implications for waste-to-energy generation research and practice.