ArticleNature communications2018
Comprehensive profiling of the ligand binding landscapes of duplexed aptamer families reveals widespread induced fit.
Article in Nature communications, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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Who cites it
14 citing papers in PubMed, 54 citations in OpenAlex.
- Cyclic transformation of stable/metastable nucleic acid structures enables dynamic monitoring of ATP in living cells.Chemical science · 2026Article
- Enriching Higher Affinity Aptamers by Addressing the Kinetic Aspect of the DNA Strand-Displacement Reaction.Angewandte Chemie (International ed. in English) · 2026Article
- An aptamer and Au/Si CCA based SERS sensor for ultra-sensitive detection of Vimentin during EMT in gastric cancer.Frontiers in bioengineering and biotechnology · 2023Article
- Measuring the Affinities of RNA and DNA Aptamers with DNA Origami-Based Chiral Plasmonic Probes.Analytical chemistry · 2022Article
- Single molecule DNA origami nanoarrays with controlled protein orientation.Biophysics reviews · 2022Article
- Unraveling the binding mode of a methamphetamine aptamer: A spectroscopic and calorimetric study.Biophysical journal · 2022Article
- Characterizing Aptamers with Reconfigurable Chiral Plasmonic Assemblies.Langmuir : the ACS journal of surfaces and colloids · 2022Article
- Article
- Advances and Challenges in Small-Molecule DNA Aptamer Isolation, Characterization, and Sensor Development.Angewandte Chemie (International ed. in English) · 2021Review
- Tumor-Targeting Cholesterol-Decorated DNA Nanoflowers for Intracellular Ratiometric Aptasensing.Advanced materials (Deerfield Beach, Fla.) · 2021Article
- Optimization of GOPS-Based Functionalization Process and Impact of Aptamer Grafting on the Si Nanonet FET Electrical Properties as First Steps towards Thrombin Electrical Detection.Nanomaterials (Basel, Switzerland) · 2020Article
- Aptamers as a novel diagnostic and therapeutic tool and their potential use in parasitologyBiomedica : revista del Instituto Nacional de Salud · 2020Review
- Perspective on the Future Role of Aptamers in Analytical Chemistry.Analytical chemistry · 2019Article
- Independent control of the thermodynamic and kinetic properties of aptamer switches.Nature communications · 2019Article
Corrections and comments
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Authors and funding
3 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Duplexed aptamers (DAs) are ligand-responsive constructs engineered by hybridizing an aptamer with an aptamer-complementary element (ACE, e.g., a DNA oligonucleotide). Although DAs are commonly deployed, the binding dynamics of ternary ACE-aptamer-ligand systems remain underexplored, having been conventionally described by a conformational selection framework. Here we introduce aptamer-complementary element scanning (ACE-Scan) as a method to generate comprehensive hybridization, spontaneous off-rate, and induced fit ligand-binding landscapes for entire DA families. ACE-Scan reveals induced fit in DAs engineered from small molecule- and protein-binding DNA and RNA aptamers, as well as DAs engineered from the natural add riboswitch aptamer. To validate ACE-Scan, we engineer solution-phase ATP-specific DAs from 5 ACEs with varying spontaneous and induced fit off-rates, generating aptasensors with 8-fold differences in dynamic range consistent with ACE-Scan. This work demonstrates that ACE-Scan can readily map induced fit in DAs, empowering aptamers in biosensing, synthetic biology, and DNA nanomachines.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.