ArticleNucleic acids research2012
Configuring robust DNA strand displacement reactions for in situ molecular analyses.
Article in Nucleic acids research, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
26 citing papers in PubMed, 53 citations in OpenAlex.
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- Implementing complex nucleic acid circuits in living cells.Science advances · 2025Article
- Ultrasensitive and Multiplexed Protein Imaging with Clickable and Cleavable Fluorophores.Analytical chemistry · 2024Article
- Ultrasensitive and multiplexed protein imaging with clickable and cleavable fluorophores.bioRxiv : the preprint server for biology · 2023Article
- Multiplexed Single-Cell in Situ Protein Profiling.ACS measurement science au · 2022Review
- The Intriguing Landscape of Single-Cell Protein Analysis.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2022Review
- Toehold-mediated strand displacement to measure released product from self-cleaving ribozymes.RNA (New York, N.Y.) · 2022Article
- Ultrasensitive and Multiplexed Protein Imaging with Cleavable Fluorescent Tyramide and Antibody Stripping.International journal of molecular sciences · 2021Article
- Kinetics of heterochiral strand displacement from PNA-DNA heteroduplexes.Nucleic acids research · 2021Article
- Multiplexed In Situ Protein Profiling with High-Performance Cleavable Fluorescent Tyramide.Molecules (Basel, Switzerland) · 2021Article
- Live cell PNA labelling enables erasable fluorescence imaging of membrane proteins.Nature chemistry · 2021Article
- Single-cell proteomic analysis.WIREs mechanisms of disease · 2021Review
- Highly Sensitive and Multiplexed In-Situ Protein Profiling with Cleavable Fluorescent Streptavidin.Cells · 2020Article
- Highly Sensitive and Multiplexed Protein Imaging With Cleavable Fluorescent Tyramide Reveals Human Neuronal Heterogeneity.Frontiers in cell and developmental biology · 2020Article
- The coordinating role of IQGAP1 in the regulation of local, endosome-specific actin networks.Biology open · 2017Article
- Computing in mammalian cells with nucleic acid strand exchange.Nature nanotechnology · 2016Article
- Target-fueled DNA walker for highly selective miRNA detection.Chemical science · 2015Article
- DNA nanotechnology from the test tube to the cell.Nature nanotechnology · 2015Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
6 authors at 1 institution in 1 country.
Funding
Abstract
The number of distinct biomolecules that can be visualized within individual cells and tissue sections via fluorescence microscopy is limited by the spectral overlap of the fluorescent dye molecules that are coupled permanently to their targets. This issue prohibits characterization of important functional relationships between different molecular pathway components in cells. Yet, recent improved understandings of DNA strand displacement reactions now provides opportunities to create programmable labeling and detection approaches that operate through controlled transient interactions between different dynamic DNA complexes. We examined whether erasable molecular imaging probes could be created that harness this mechanism to couple and then remove fluorophore-bearing oligonucleotides to and from DNA-tagged protein markers within fixed cell samples. We show that the efficiency of marker erasing via strand displacement can be limited by non-toehold mediated stand exchange processes that lower the rates that fluorophore-bearing strands diffuse out of cells. Two probe constructions are described that avoid this problem and allow efficient fluorophore removal from their targets. With these modifications, we show one can at least double the number of proteins that can be visualized on the same cells via reiterative in situ labeling and erasing of markers on cells.
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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.