ArticleAnalytical chemistry2013
Optimized light-directed synthesis of aptamer microarrays.
Article in Analytical chemistry, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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Who cites it
17 citing papers in PubMed.
- Combinatorial and rational synthesis of complex, base-modified aptamer libraries on microarrays.RSC advances · 2026Article
- Dipodal Silanes Greatly Stabilize Glass Surface Functionalization for DNA Microarray Synthesis and High-Throughput Biological Assays.Analytical chemistry · 2023Article
- Enzymatic Synthesis of High-Density RNA Microarrays.Current protocols · 2023Article
- Simple synthesis of massively parallel RNA microarrays via enzymatic conversion from DNA microarrays.Nature communications · 2022Article
- Visible-to-NIR-Light Activated Release: From Small Molecules to Nanomaterials.Chemical reviews · 2020Article
- Specificity and Efficiency of the Uracil DNA Glycosylase-Mediated Strand Cleavage Surveyed on Large Sequence Libraries.Scientific reports · 2019Article
- Multi-level patterning nucleic acid photolithography.Nature communications · 2019Article
- High-Efficiency Reverse (5'→3') Synthesis of Complex DNA Microarrays.Scientific reports · 2018Article
- Label-free biosensing of Salmonella enterica serovars at single-cell level.Journal of nanobiotechnology · 2017Article
- Mapping the affinity landscape of Thrombin-binding aptamers on 2΄F-ANA/DNA chimeric G-Quadruplex microarrays.Nucleic acids research · 2017Article
- Express photolithographic DNA microarray synthesis with optimized chemistry and high-efficiency photolabile groups.Journal of nanobiotechnology · 2016Article
- Next-Generation o-Nitrobenzyl Photolabile Groups for Light-Directed Chemistry and Microarray Synthesis.Angewandte Chemie (International ed. in English) · 2015Article
- Aptamer Microarrays-Current Status and Future Prospects.Microarrays (Basel, Switzerland) · 2015Review
- Carbon Substrates: A Stable Foundation for Biomolecular Arrays.Annual review of analytical chemistry (Palo Alto, Calif.) · 2015Review
- Base-cleavable microarrays for the characterization of DNA and RNA oligonucleotides synthesized in situ by photolithography.Chemical communications (Cambridge, England) · 2014Article
- Comparison of the sequence-dependent fluorescence of the cyanine dyes Cy3, Cy5, DyLight DY547 and DyLight DY647 on single-stranded DNA.PloS one · 2014Article
- Simultaneous light-directed synthesis of mirror-image microarrays in a photochemical reaction cell with flare suppression.Analytical chemistry · 2013Article
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Authors and funding
6 authors.
Funding
Abstract
Aptamer microarrays are a promising high-throughput method for ultrasensitive detection of multiple analytes, but although much is known about the optimal synthesis of oligonucleotide microarrays used in hybridization-based genomics applications, the bioaffinity interactions between aptamers and their targets is qualitatively different and requires significant changes to synthesis parameters. Focusing on streptavidin-binding DNA aptamers, we employed light-directed in situ synthesis of microarrays to analyze the effects of sequence fidelity, linker length, surface probe density, and substrate functionalization on detection sensitivity. Direct comparison with oligonucleotide hybridization experiments indicates that aptamer microarrays are significantly more sensitive to sequence fidelity and substrate functionalization and have different optimal linker length and surface probe density requirements. Whereas microarray hybridization probes generate maximum signal with multiple deletions, aptamer sequences with the same deletion rate result in a 3-fold binding signal reduction compared with the same sequences synthesized for maximized sequence fidelity. The highest hybridization signal was obtained with dT 5mer linkers, and the highest aptamer signal was obtained with dT 11mers, with shorter aptamer linkers significantly reducing the binding signal. The probe hybridization signal was found to be more sensitive to molecular crowding, whereas the aptamer probe signal does not appear to be constrained within the density of functional surface groups commonly used to synthesize microarrays.
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