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View article: Overcoming the Speed Limit of Four-Way DNA Branch Migration with Bulges in Toeholds
Overcoming the Speed Limit of Four-Way DNA Branch Migration with Bulges in Toeholds Open
Dynamic DNA nanotechnology creates programmable reaction networks and nanodevices by using DNA strands. The key reaction in dynamic DNA nanotechnology is the exchange of DNA strands between different molecular species, achieved through thr…
View article: Epigenetic regulation of reprogramming and pluripotency: insights from histone modifications and their implications for cancer stem cell therapies
Epigenetic regulation of reprogramming and pluripotency: insights from histone modifications and their implications for cancer stem cell therapies Open
Pluripotent stem cells (PSCs) possess the extraordinary capability to differentiate into a variety of cell types. This capability is tightly regulated by epigenetic mechanisms, particularly histone modifications. Moreover, the reprogrammin…
View article: Information propagation through enzyme-free catalytic templating of DNA dimerization with weak product inhibition
Information propagation through enzyme-free catalytic templating of DNA dimerization with weak product inhibition Open
Information propagation by sequence-specific, template-catalyzed molecular assembly is the source of the biochemical complexity of living systems. Templating allows the production of thousands of sequence-defined proteins from only 20 dist…
View article: Information propagation through catalytic enzyme-free templating of DNA dimerisation with weak product inhibition
Information propagation through catalytic enzyme-free templating of DNA dimerisation with weak product inhibition Open
Information propagation by sequence-specific, template-catalyzed molecular assembly is the source of the biochemical complexity of living systems, allowing thousands of sequence-defined proteins to be produced from only 20 distinct buildin…
View article: Overcoming the speed limit of four‐way DNA branch migration with bulges in toeholds
Overcoming the speed limit of four‐way DNA branch migration with bulges in toeholds Open
Dynamic DNA nanotechnology involves the use of DNA strands to create programmable reaction networks and nanodevices. The key reaction in dynamic DNA nanotechnology is the exchange of DNA strands between different molecular species, which i…
View article: Pickering emulsions stabilised with oligoglycine-functionalised nanodiamond as a model system for ocular drug delivery applications
Pickering emulsions stabilised with oligoglycine-functionalised nanodiamond as a model system for ocular drug delivery applications Open
Nanodiamond – functionalised with oligoglycine – is used as a novel Pickering emulsion stabiliser, offering high retention on bovine cornea tissue via mucoadhesion.
View article: Building an RNA-Based Toggle Switch Using Inhibitory RNA Aptamers
Building an RNA-Based Toggle Switch Using Inhibitory RNA Aptamers Open
Synthetic RNA systems offer unique advantages such as faster response, increased specificity, and programmability compared to conventional protein-based networks. Here, we demonstrate an in vitro RNA-based toggle switch using RNA aptamers …
View article: Building an RNA-based Toggle Switch using Inhibitory RNA Aptamers
Building an RNA-based Toggle Switch using Inhibitory RNA Aptamers Open
Synthetic RNA systems offer unique advantages such as faster response, increased specificity, and programmability compared to conventional protein-based networks. Here, we demonstrate an in-vitro RNA-based toggle switch using RNA aptamers …
View article: Quasi-robust control of biochemical reaction networks via stochastic morphing
Quasi-robust control of biochemical reaction networks via stochastic morphing Open
One of the main objectives of synthetic biology is the development of molecular controllers that can manipulate the dynamics of a given biochemical network that is at most partially known. When integrated into smaller compartments, such as…
View article: Direct evaluation of self-quenching behavior of fluorophores at high concentrations using an evanescent field
Direct evaluation of self-quenching behavior of fluorophores at high concentrations using an evanescent field Open
The quantum yield of a fluorophore is reduced when two or more identical fluorophores are in close proximity to each other. The study of protein folding or particle aggregation is can be done based on this above-mentioned phenomenon—called…
View article: Nucleotide Excision Repair, XPA-1, and the Translesion Synthesis Complex, POLZ-1 and REV-1, Are Critical for Interstrand Cross-Link Repair in <i>Caenorhabditis elegans</i> Germ Cells
Nucleotide Excision Repair, XPA-1, and the Translesion Synthesis Complex, POLZ-1 and REV-1, Are Critical for Interstrand Cross-Link Repair in <i>Caenorhabditis elegans</i> Germ Cells Open
Interstrand cross-links (ICLs) are adducts of covalently linked nucleotides in opposing DNA strands that obstruct replication and prime cells for malignant transformation or premature cell death. ICLs may be caused by alkylating agents or …
View article: <i>In situ</i>generation of RNA complexes for synthetic molecular strand displacement circuits in autonomous systems
<i>In situ</i>generation of RNA complexes for synthetic molecular strand displacement circuits in autonomous systems Open
Synthetic molecular circuits implementing DNA or RNA strand-displacement reactions can be used to build complex systems such as molecular computers and feedback control systems. Despite recent advances, application of nucleic acid-based ci…
View article: Handhold-mediated strand displacement: a nucleic acid-based mechanism for generating far-from-equilibrium assemblies through templated reactions
Handhold-mediated strand displacement: a nucleic acid-based mechanism for generating far-from-equilibrium assemblies through templated reactions Open
Toehold-mediated strand displacement (TMSD) is a nucleic acid-based reaction wherein an invader strand ( I ) replaces an incumbent strand ( N ) in a duplex with a target strand ( T ). TMSD is driven by toeholds, overhanging single-stranded…
View article: Handhold-mediated strand displacement: a nucleic acid-based mechanism for generating far-from-equilibrium assemblies through templated reactions
Handhold-mediated strand displacement: a nucleic acid-based mechanism for generating far-from-equilibrium assemblies through templated reactions Open
Raw data, results, and Matlab scripts used for this publication. See README for more information. Toehold-mediated strand displacement (TMSD) is a nucleic acid-based reaction wherein an invader strand (I) replaces an incumbent strand (N) i…
View article: Handhold-mediated strand displacement: a nucleic acid-based mechanism for generating far-from-equilibrium assemblies through templated reactions
Handhold-mediated strand displacement: a nucleic acid-based mechanism for generating far-from-equilibrium assemblies through templated reactions Open
Raw data, results, and Matlab scripts used for this publication. See README for more information. ABSTRACT: The use of templates is a well-established method for the production of sequence-controlled assemblies, particularly long polymers.…
View article: Hypersensitivity to DNA double‐strand breaks associated with PARG deficiency is suppressed by <i>exo‐1</i> and <i>polq‐1</i> mutations in <i>Caenorhabditis elegans</i>
Hypersensitivity to DNA double‐strand breaks associated with PARG deficiency is suppressed by <i>exo‐1</i> and <i>polq‐1</i> mutations in <i>Caenorhabditis elegans</i> Open
Deficiency of either of the two homologs of poly(ADP‐ribose) glycohydrolase (PARG), PARG‐1 and PARG‐2, in Caenorhabditis elegans leads to hypersensitivity to ionizing radiation (IR). In the germ cells of parg‐2 mutant worms, the dissipatio…
View article: Robust control of biochemical reaction networks via stochastic morphing
Robust control of biochemical reaction networks via stochastic morphing Open
Synthetic biology is an interdisciplinary field aiming to design biochemical systems with desired behaviors. To this end, molecular controllers have been developed which, when embedded into a pre-existing ambient biochemical network, contr…
View article: Dual Aptamer-Functionalized 3D Plasmonic Metamolecule for Thrombin Sensing
Dual Aptamer-Functionalized 3D Plasmonic Metamolecule for Thrombin Sensing Open
DNA nanotechnology offers the possibility to rationally design structures with emergent properties by precisely controlling their geometry and functionality. Here, we demonstrate a DNA-based plasmonic metamolecule that is capable of sensin…
View article: Directional Photonic Wire Mediated by Homo-Förster Resonance Energy Transfer on a DNA Origami Platform
Directional Photonic Wire Mediated by Homo-Förster Resonance Energy Transfer on a DNA Origami Platform Open
Elaborating efficient strategies and deepening the understanding of light transport at the nanoscale is of great importance for future designs of artificial light-harvesting assemblies and dye-based photonic circuits. In this work, we focu…
View article: Self-Assembled DNA Tubes Forming Helices of Controlled Diameter and Chirality
Self-Assembled DNA Tubes Forming Helices of Controlled Diameter and Chirality Open
Multihelical DNA bundles could enhance the functionality of nanomaterials and serve as model architectures to mimic protein filaments on the molecular and cellular level. We report the self-assembly of micrometer-sized helical DNA nanotube…
View article: Molecular force spectroscopy with a DNA origami–based nanoscopic force clamp
Molecular force spectroscopy with a DNA origami–based nanoscopic force clamp Open
Many tiny force sensors Several techniques can measure forces on biomolecules, but the need to connect the molecule to the macroscopic world often limits the rate at which data can be taken. Nickels et al. created large arrays of nanoscale…
View article: Cryptft+ : Python/Pyqt based File Encryption & Decryption System Using AES and HASH Algorithm
Cryptft+ : Python/Pyqt based File Encryption & Decryption System Using AES and HASH Algorithm Open
본 논문에서는 IoT 시스템 또는 개인별 문서 파일 관리 과정의 보안성을 향상시키기 위해 개선된 파일 암복호화 시스템인 Crypft+를 개발했다. Crypft+ 시스템은 Python을 이용하여 핵심 보안 모듈을 개발하였으며, PyQt를 사용하여 사용자 인터페이스를 설계 및 구현하였다. 또한 가장 보안성이 뛰어난 AES 기반 대칭키 암호 알고리즘과 SHA-512 기반 해쉬 알고리즘을 이용하여 컴퓨터 시스템 내부에 저장된 중요 …
View article: CCDC 1445019: Experimental Crystal Structure Determination
CCDC 1445019: Experimental Crystal Structure Determination Open
An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available …
View article: Membrane-Assisted Growth of DNA Origami Nanostructure Arrays
Membrane-Assisted Growth of DNA Origami Nanostructure Arrays Open
Biological membranes fulfill many important tasks within living organisms. In addition to separating cellular volumes, membranes confine the space available to membrane-associated proteins to two dimensions (2D), which greatly increases th…
View article: CCDC 1408114: Experimental Crystal Structure Determination
CCDC 1408114: Experimental Crystal Structure Determination Open
An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available …
View article: Apoptosis-Inducing Activity of Marine Sponge<i>Haliclona</i>sp. Extracts Collected from Kosrae in Nonsmall Cell Lung Cancer A549 Cells
Apoptosis-Inducing Activity of Marine Sponge<i>Haliclona</i>sp. Extracts Collected from Kosrae in Nonsmall Cell Lung Cancer A549 Cells Open
Although various anticancer drugs have been developed for the treatment of nonsmall cell lung cancer, chemotherapeutic efficacy is still limited. Natural products such as phytochemicals have been screened as novel alternative materials, bu…