Advanced biosensing and bioanalysis techniques

Approaches to optimize cell internalization and in vivo tumor homing by aptamer-drug conjugates using SELEX

This study explores optimizing aptamer-drug conjugates for GBM treatment by focusing on internalization and tumor homing through in vivo SELEX, but faces challenges with tumor specificity.

Colloidal DNA nanoaggregates applied towards file-partitioning for information storage and dynamic data obfuscation

This paper demonstrates the use of colloidal DNA/RNA nanoaggregates for data storage and obfuscation by encoding digital information into oligo libraries and manipulating ionic strength.

Multiplexed sequence-resolved screening of transient DNA hybridization for programmable nanotechnology

The paper introduces SPARXS-Hyb, a method for multiplexed screening of DNA hybridization kinetics, identifying sequences with improved performance in DNA-PAINT.

Glycine detection with a nuclease-stable L-RNA sensor

This paper develops a nuclease-stable L-RNA glycine sensor using cross-chiral ligation, enabling extracellular glycine detection in serum.

Logic-Gated Fluorogenic RNA Reporters for Multiplexed Live-Cell Imaging

The paper introduces logicFRIES, a fluorogenic RNA platform enabling eight-plex live-cell imaging through logic-gated activation and sequential fluorescence imaging.

Cell-Based Sensor for Extracellular DNA

This paper introduces a cell-based sensor called LUNAR that detects extracellular double-stranded DNA with nanomolar sensitivity in mammalian cells.

Periodic DNA encoding enables error-tolerant multi-class molecular detection by nanopore sequencing

This paper introduces a method to detect multiple molecular classes using nanopore sequencing by encoding targets into periodic DNA barcodes, achieving high specificity and error tolerance.

DNA Origami Nanomechanical Amplifiers for Resolving Single-Molecule Binding Events

This paper introduces a DNA origami nanomechanical amplifier that translates molecular conformational changes into measurable mechanical displacements, enabling single-molecule analysis of binding events without labeling or fluorescence.

A High-Throughput Platform for Rapid Adaptation of DNA Aptamers to SARS-CoV-2 Evolution

This paper develops a high-throughput platform to rapidly adapt DNA aptamers against evolving SARS-CoV-2 variants, identifying mutants with improved binding affinity and specificity.

Dye-cycling DNA origami rotors for long-term tracking of transcription at base-pair resolution

This paper introduces dcORBIT, a method that extends DNA rotation tracking during transcription to over 10 minutes at 20 Hz with single base-pair precision.

Programmable Allosteric DNAzyme Coupled with CRISPR/Cas12a System for Multiplexed and Sensitive Detection of Extracellular Vesicle Derived MicroRNAs

This paper develops a CRISPR/Cas12a-based system for sensitive and multiplexed detection of EV-derived microRNAs using DNAzyme and machine learning for cancer classification.

Characterizing the Assembly and Functional Properties of Gene-Length Mixed DNA Monolayers on Electrodes for Cell-Free Expression

This study investigates gene-length DNA monolayers on gold electrodes for cell-free protein expression, showing tunable surface density and partial functional retention under certain conditions.

OrthoSeq: A Design Workflow for Thermodynamically Orthogonal DNA Sequence-Pair Libraries

OrthoSeq designs DNA sequence-pair libraries with thermodynamic orthogonality, outperforming sequential methods in library size under constraints.

Automated design of stiffness-tunable DNA origami hollowframes for self-assembling metamaterials

This paper introduces an automated design method for stiffness-tunable DNA origami nanostructures that can be manufactured into functional metamaterials.

Real-time electrochemical protein monitoring using molecular pendulum sensors

This paper introduces molecular pendulum electrochemical sensors with active-reset mechanisms for real-time, ultrasensitive protein detection in biofluids.

Fuel-driven catalytic molecular templating

This paper introduces an enzyme-free DNA-based templated dimerization reaction controlled by a fuel strand that displaces product to overcome inhibition, enabling information propagation from templates.

Rationally designed split Lettuce aptamer based on large scale mutational analysis

This paper identifies high-performance split sites in DNA aptamers through large-scale mutational analysis, improving signal-to-background ratio for RNA detection.

In Vivo Selection of anti-glioblastoma DNA aptamer-drug conjugates in an orthotopic patient-derived xenograft model

This study develops and tests DNA aptamer-drug conjugates (ApDCs) for glioblastoma treatment using an in vivo SELEX approach in a patient-derived xenograft model.

Aptaswitch/aptakiss adenosine sensor design based on the selection of new DNA/DNA kissing complexes

The paper identifies DNA-DNA kissing complexes and develops an adenosine-triggered aptaswitch using them for controlled nanostructure assembly.

Programming the Internal Architecture of Synthetic Compartments by Coassembling Filamentous and Liquid DNA Phases

This paper demonstrates the co-assembly of DNA nanotubes and condensates in synthetic compartments, enabling programmable structures that mimic cellular organization.

A computational framework for designing micron-scale crisscross DNA megastructures

This paper develops a computational framework to design crisscross DNA megastructures, optimizing handle assignment and expanding handle libraries to enable large-scale fabrication.

Programmable and Dynamic DNA Localisation at Synthetic Cell Membranes

This paper presents a method to achieve programmable and dynamic DNA localisation at synthetic cell membranes using RNA linkers and enzymatic degradation.

Optical Spectral Fingerprinting Enables Sensitive Detection of Anthracycline Chemotherapeutics in Synthetic Clinical Biofluids

This paper develops an optical nanosensor array to detect anthracycline chemotherapeutics in synthetic biofluids using machine learning for classification and concentration analysis.

AptBacterialDB: A Comprehensive, Manually Curated Database of Antibacterial Aptamers

AptBacterialDB is a manually curated database of antibacterial aptamers with detailed annotations and integration tools to support research and development.

AptCancerDB: A Curated Knowledgebase and Translational Discovery Platform for Anticancer Aptamers

AptCancerDB curates experimentally validated anticancer aptamers, providing a resource for discovery and development of diagnostics and therapeutics.

Transcription-induced coacervation accelerates and sensitizes cell-free biosensing

This paper demonstrates that transcription-induced coacervation accelerates and enhances cell-free biosensing by mimicking intracellular phase separation, improving sensitivity and reducing detection time.

Rationally Anchored Geometry-Controlled DNA Tetrahedral Nanostructures for Attomolar Impedimetric IL-6 Detection

This paper develops an impedimetric aptasensor using DNA tetrahedral nanostructures for ultrasensitive IL-6 detection with a limit of detection of 55 ag/mL.

Agnostic material classification using differential de Bruijn graphs of DNA imprints

This paper introduces a computational pipeline using DNA k-mer imprints to agnostically classify and distinguish materials based on their sequence patterns.

Far-from-equilibrium assembly of multimers through DNA-based catalytic templating

This paper introduces an enzyme-free DNA strand displacement network that uses DNA templates to assemble non-covalent DNA multimers under isothermal conditions, achieving far-from-equilibrium product formation.

RNA Organelles in DNA-based Artificial Cells Provide Spatial Aptamer Functions and Enhanced Signal Processing

This paper develops DNA-RNA artificial cells with RNA organelles that enable spatially encoded functions and signal processing through aptamer-based protein recruitment and environmental responsiveness.