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Dataset results
32 results for “origami”
DNA Origami Raw AFM Data - NanoLocz: Image analysis platform for AFM, high-speed AFM and localization AFM
<p>The data file is in the original ARIS data format as captured on a Cypher VRS1250 AFM (Oxford Instruments)<br><br><br></p>
Tilt-series 4DSTEM dataset of DNA origami with gold nanoparticles
<p>Raw TEM data for the manuscript "Three-dimensional Electron Ptychography of Organic-inorganic Hybrid Nanostructures".</p>
DNA origami book biosensor for multiplex detection of cancer-associated nucleic acids
<p>This dataset contains the raw data that were used for the publication entitled, "DNA origami book biosensor for multiplex detection of cancer-associated nucleic acids" published in Nanoscale.</p> <p> </p> <p>Abstract</p> <p>DNA nanotechnology provides a promising approach for the development of biomedical point-of-care diagnostic nanoscale devices that are easy to use and cost-effective, highly sensitive and thus constitute an alternative to expensive, complex diagnostic devices. Moreover, DNA nanotechnology-based devices are particularly advantageous for applications in oncology, owing to being ideally suited for the detection of cancer-associated nucleic acids, including circulating tumor-derived DNA fragments (ctDNAs), circulating microRNAs (miRNAs) and other RNA species. Here, we present a dynamic DNA origami book biosensor that is precisely decorated with arrays of fluorophores acting as donors and acceptors and also fluorescence quenchers that produce a strong optical readout upon exposure to external stimuli for the single or dual detection of target oligonucleotides and miRNAs. This biosensor allowed the detection of target molecules either through the decrease of Förster resonance energy transfer (FRET) or an increase in the fluorescence intensity profile owing to a rotation of the constituent top layer of the structure. Single-DNA origami experiments showed that detection of two targets can be achieved simultaneously within 10 min with a limit of detection in the range of 1–10 pM. Overall, our DNA origami book biosensor design showed sensitive and specific detection of synthetic target oligonucleotides and natural miRNAs extracted from cancer cells. Based on these results, we foresee that our DNA origami biosensor may be developed into a cost-effective point-of-care diagnostic strategy for the specific and sensitive detection of a variety of DNAs and RNAs, such as ctDNAs, miRNAs, mRNAs, and viral DNA/RNAs in human samples.</p>
Self-Regeneration and Self-Healing in DNA Origami Nanostructures
<p>DNA nanotechnology and advances in the DNA origami technique have enabled facile design and synthesis of complex and<br> functional nanostructures. Molecular devices are, however, prone to rapid functional and structural degradation due to the high proportion of surface atoms at the nanoscale and due to complex working environments. Besides stabilizing mechanisms, approaches for the self-repair of functional molecular devices are desirable. Here we exploit the self-assembly and reconfigurability of DNA origami nanostructures to induce the self-repair of defects of photoinduced and enzymatic damage. We provide examples of repair in DNA nanostructures showing the difference between unspecific self-regeneration and damage-specific self-healing mechanisms. Using DNA origami nanorulers studied by atomic force and superresolution DNA PAINT microscopy, quantitative preservation of fluorescence properties is demonstrated with the direct potential for improving nanoscale calibration samples. Here we demonstrate the data on which our findings based on. </p>
Curved crease origami at cellular scales enables hyper-extensibility of Lacrymaria olor
<p>Eukaryotic cells undergo dramatic morphological changes during cell division, phagocytosis, and motility. Fundamental limits of cellular morphodynamics such as how fast or how much cellular shapes can change without harm to a living cell remain poorly understood. Here we describe hyper-extensibility in the single-celled protist <em>Lacrymaria olor</em>, a 40 μm cell which is capable of reversible and repeatable extensions (neck-like protrusions) up to 1500 μm in 20 seconds. We discover that a unique and intricate organization of cortical cytoskeleton and membrane enables these hyper-extensions that can be described as the first cellular scale curved crease origami. Furthermore, we show how these topological singularities including dcones and twisted domain walls provide a geometrical control mechanism for the deployment of membrane and microtubule sheets as they repeatably spool thousands of times from the cell body. We lastly build physical origami models to understand how these topological singularities provide a mechanism for the cell to control the hyper-extensile deployable structure. This new geometrical motif where a cell employs curved crease origami to perform a physiological function has wide-ranging implications in understanding cellular morphodynamics and direct applications in deployable micro-robotics.</p>
Data for "Controlled mechanochemical coupling of anti-junctions in DNA origami arrays"
<p>We provide the raw data for the paper "Controlled mechanochemical coupling of anti-junctions in DNA origami arrays". The files have .tif files-format.</p> <p>Additionally we provide the python scripts used to analyze these data sets.</p>
Origami Metamaterials: Design, Symmetries, and Combinatorics
<p>Raw data files + python processing and plotting scripts of the experiments shown in chapter 5 of thesis:</p> <p>Origami Metamaterials: Design, Symmetries, and Combinatorics</p> <p>Author: P. Dieleman</p> <p>Supervisor: prof. M. van Hecke</p> <p>affiliation: Leiden Institute of Physics</p> <p>ISBN: 978-90-8593-361-8</p> <p>under embargo until: 16-04-2020</p>
Benchmarking Smartphone Fluorescence-Based Microscopy with DNA Origami Nanobeads: Reducing the Gap toward Single-Molecule Sensitivity
<p>Smartphone-based fluorescence microscopy has been rapidly developing over the last few years, enabling point-of-need detection of cells, bacteria, viruses, and biomarkers. These mobile microscopy devices are cost-effective, field-portable, and easy to use, and benefit from economies of scale. Recent developments in smartphone camera technology have improved their performance, getting closer to that of lab microscopes. Here, we report the use of DNA origami nanobeads with predefined numbers of fluorophores to quantify the sensitivity of a smartphone-based fluorescence microscope in terms of the minimum number of detectable molecules per diffraction-limited spot. With the brightness of a single dye molecule as a reference, we compare the performance of color and monochrome sensors embedded in state-of-the-art smartphones. Our results show that the monochrome sensor of a smartphone can achieve better sensitivity, with a detection limit of ∼10 fluorophores per spot. The use of DNA origami nanobeads to quantify the minimum number of detectable molecules of a sensor is broadly applicable to evaluate the sensitivity of various optical instruments.</p>
Quantifying Expansion Microscopy with DNA Origami Expansion Nanorulers
<p>Expansion microscopy evolved as an interesting alternative in the field of super-resolution microscopy by physically expanding the target sample to increase its size by a multiple and to subsequently image the sample by conventional fluorescence microcopy. But the quantitative determination of the expansion factor remains challenging, since microscopic measurement standards are missing. Here we use DNA nanorulers in combination with expansion microscopy to expand the fluorescently marked rulers in 2D and to determine the intermark distances before and after expansion. We compare macroscopic and microscopic expansion factors where we found substantial deviations, which should be considered for the quantitative discussion of expansion microscopy data of biological cells and tissues. The demonstrated proof-of-principle opens a new field with the potential to answer questions with respect to quantitation of microscopic magnification and the introduced expansion nanorulers present a powerful tool to reveal the true origin of anisotropy and heterogeneity in expanded microscopy specimen.</p> <p> </p> <p>Here we show the raw data the publication is based on.</p>
Curved crease origami at cellular scales enables hyper-extensibility of Lacrymaria olor
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Data set for the replication package of the paper "Simulations of DNA-origami self-assembly reveal design-dependent nucleation barriers"
<p>Data set for the replication package of the paper "Simulations of DNA-origami self-assembly reveal design-dependent nucleation barriers".</p>
NEOtrap data with cholesterol functionalized DNA origami spheres
<p>Source data used in the manuscript:<br> Orientation-locked DNA origami improves single-protein trapping in the NEOtrap</p> <p>The measurements were implemented in 600 KHM buffer under the bias voltage of 100 mV.<br> Names of these files specify the trapped protein's name with corresponding measurement conditions, i.e.,<br> bare origami sphere, Cholesterol functionalized sphere in vertical configuration, and Cholesterol functionalized sphere in horizontal configuration<br> </p>
Pantera Origami 3D
Interpretación personal de una pantera en estilo origami poligonal 3D. Basada en la figura de porcelana de la empresa Lladró. Pueden descargar este recurso 3D gratuito y pintar tu propia versión ;) Personal interpretation of a panther in 3D polygonal origami style. Based on the porcelain figure of the Lladró company. You can download this free 3D resource and paint your own version ;) Source: Objaverse 1.0 / Sketchfab
Site-directed placement of three-dimensional DNA origami
<p><span>The combination of lithographic methods with 2D DNA origami self-assembly has led, among others, to the development of photonic crystal cavity arrays and the exploration of sensing nanoarrays where molecular devices are patterned on the sub-micron scale. Here we extend this concept to the third dimension by mounting 3D DNA origami onto nano-patterned substrates, followed by silicification to provide mechanical and chemical stability. We created fully addressable, three-dimensional nanopatterns of hybrid DNA-silica structures with heights up to 50 nm and feature size in the sub-10-nm regime. Our versatile and scalable method relying on self-assembly at ambient temperatures offers the potential to 3D-position any inorganic and organic components compatible with DNA origami nanoarchitecture, demonstrated with gold nanoparticles. This way of nanotexturing could provide a route for the low-cost production of complex and 3D-patterned surfaces and integrated devices designed on the molecular level while reaching macroscopic dimensions.</span></p>
Solar-powered Shape-changing Origami Microfliers
<p>Datasets used in the paper: "Solar-powered Shape-changing Origami Microfliers".</p> <p> </p> <p>This deposit contains the <strong>entirety</strong> of the raw datasets collected from real world experiments used to generate all of the figures and supplementary materials in the aforementioned paper. These also include the MCU's source code and PCB design files used to create the leaf-out origami robot prototypes. </p> <p>Please see the Readme for more information.</p>
Origami Swan
[YouTube video](https://www.youtube.com/watch?v=8YT7sEcD3a0) or [Instructables](https://www.instructables.com/Modular-Origami-Mini-Winged-Swan-181-Pieces/) guide for making your own swan! About the scan: - Model size: 15x7x9 cms - Nikon Macro lens - 6000x4000 - 90+ images various angles - Metashape 1.8.1 - a lot of issues with this model Source: Objaverse 1.0 / Sketchfab
Programmable liposome organization via DNA origami templates
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DNA origami signal amplification in lateral flow immunoassays
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Site-directed placement of three-dimensional DNA origami
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Data for: Design and testing of a sew-free origami mask for improvised respiratory protection
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.