Detection of three-base deletion by exciplex formation with perylene derivatives

Kashida, Hiromu; Kondo, Nobuyo; Sekiguchi, Koji; Asanuma, Hiroyuki

doi:10.1039/c1cc11041a

Cited by 13 publications

(3 citation statements)

References 20 publications

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“…We have also provided a data set table [table 1] in order to compare the our method with the previous reports on gene deletion detection by different techniques [47][48][49][50][51]. The detection limit of the system was determined to be 64 pM which is comparable to those of previous reports, as it can be seen in table 1.…”

Section: Sensitivity Of Experimentssupporting

confidence: 56%

Detection of large deletion in human BRCA1 gene in human breast carcinoma MCF-7 cells by using DNA-Silver Nanoclusters

Borghei

Hosseini

Ganjali

2017

Methods Appl. Fluoresc.

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Here we describe a label-free detection strategy for large deletion mutation in breast cancer (BC) related gene BRCA1 based on a DNA-silver nanocluster (NC) fluorescence upon recognition-induced hybridization. The specific hybridization of DNA templated silver NCs fluorescent probe to target DNAs can act as effective templates for enhancement of AgNCs fluorescence, which can be used to distinguish the deletion of BRCA1 due to different fluorescence intensities. Under the optimal conditions, the fluorescence intensity of the DNA-AgNCs at emission peaks around 440 nm (upon excitation at 350 nm) increased with the increasing deletion type within a dynamic range from 1.0 × 10 to 2.4 × 10 M with a detection limit (LOD) of 6.4 × 10 M. In this sensing system, the normal type shows no significant fluorescence; on the other hand, the deletion type emits higher fluorescence than normal type. Using this nanobiosensor, we successfully determined mutation using the non-amplified genomic DNAs that were isolated from the BC cell line.

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Section: Sensitivity Of Experimentssupporting

confidence: 56%

Detection of large deletion in human BRCA1 gene in human breast carcinoma MCF-7 cells by using DNA-Silver Nanoclusters

Borghei

Hosseini

Ganjali

2017

Methods Appl. Fluoresc.

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“…An ISMB probe design that can detect deletion mutants is schematically illustrated in Figure a . Two fluorophores ( F and L ) are introduced on either side of the target sequence .…”

Section: Design Of Functional Fluorescent Probes For Sequence‐specifimentioning

confidence: 99%

“…An ISMB probe design that can detect deletion mutants is schematically illustrated in Figure a . Two fluorophores ( F and L ) are introduced on either side of the target sequence . When the probe hybridizes with the fully matched wild‐type sequence ( Wild in Figure b), the two fluorophores are intercalated between base pairs to form a stable wedge motif, and the target base pairs interrupt the direct contact between F and L .…”

Section: Design Of Functional Fluorescent Probes For Sequence‐specifimentioning

confidence: 99%

De NovoDesign of Functional Oligonucleotides with Acyclic Scaffolds

Asanuma

Kashida

2014

The Chemical Record

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In this account, we demonstrate a new methodology for the de novo design of functional oligonucleotides with the acyclic scaffolds threoninol and serinol. Four functional motifs-wedge, interstrand-wedge, dimer, and cluster-have been prepared from natural DNA or RNA and functional base surrogates prepared from d-threoninol. The following applications of these motifs are described: (1) photoregulation of formation and dissociation of a DNA duplex modified with azobenzene, (2) sequence-specific detection of DNA using a fluorescent probe, (3) formation of fluorophore assemblies that mimic quantum dots, (4) improved strand selectivity of siRNA modified with a base surrogate, and (5) in vivo tracing of the RNAi pathway. Finally, we introduce artificial nucleic acids (XNAs) prepared from d-threoninol and serinol functionalized with each of the four nucleobases, which have unique properties compared with other acyclic XNAs. Functional oligonucleotides designed from acyclic scaffolds will be powerful tools for both DNA nanotechnology and biotechnology.

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