A novel nest hybridization chain reaction based electrochemical assay for sensitive detection of circulating tumor DNA

Huang, Yue; Tao, Maliang; Luo, Shihua; Zhang, Ye; Situ, Bo; Ye, Xinyi; Chen, PeiWen; Jiang, Xingshan; Wang, Qian; Zheng, Lei

doi:10.1016/j.aca.2020.02.006

Cited by 55 publications

(23 citation statements)

References 35 publications

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“…Prior to our study, the fastest ctDNA biosensor we found at a response time of 65 min for a 69 basepair long sequence. 27 Other studies use shorter DNA sequences as models of ctDNA and have response times of the order of 1.5 to 5.5 h. [28][29][30] The specicity of the biosensor was explored using the long ctDNA (101 nucleotides) strands by investigating single point mutation of the NSCLC-related sequence. The average changes of (50.7 AE 3.7)% and (6.6 AE 4.2)% decrease in the current were observed aer hybridization with 20 nM complementary ctDNA target and single mismatched 101 nucleotide ctDNA sequence (Fig.…”

Section: Resultsmentioning

confidence: 99%

Rapid and ultrasensitive electrochemical detection of circulating tumor DNA by hybridization on the network of gold-coated magnetic nanoparticles

Chen

Hoque

et al. 2021

Chem. Sci.

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Section: Resultsmentioning

confidence: 99%

Rapid and ultrasensitive electrochemical detection of circulating tumor DNA by hybridization on the network of gold-coated magnetic nanoparticles

Chen

Hoque

et al. 2021

Chem. Sci.

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“…The signal of this biosensor was enhanced through hybridization chain reaction (HCR) that took place on a gold electrode’s surface, while the HCR products were biotinylated and detected by streptavidin-alkaline phosphatase through biotin–streptavidin interaction. The sensor’s characteristics were >1.5 h of analysis time, about 17 h of fabrication time, quite good specificity, and LOD of 3 pM, but no multiplexing or universality potential [ 33 ]. In an effort to enhance the hybridization efficiency and specificity, Das et al, (2019 and 2016) developed an electrochemical sensor that uses combinatorial DNA probes or clutch probes and PNA clamps.…”

Section: Discussionmentioning

confidence: 99%

Rapid Multiplex Strip Test for the Detection of Circulating Tumor DNA Mutations for Liquid Biopsy Applications

et al. 2022

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In the era of personalized medicine, molecular profiling of patient tumors has become the standard practice, especially for patients with advanced disease. Activating point mutations of the KRAS proto-oncogene are clinically relevant for many types of cancer, including colorectal cancer (CRC). While several approaches have been developed for tumor genotyping, liquid biopsy has been gaining much attention in the clinical setting. Analysis of circulating tumor DNA for genetic alterations has been challenging, and many methodologies with both advantages and disadvantages have been developed. We here developed a gold nanoparticle-based rapid strip test that has been applied for the first time for the multiplex detection of KRAS mutations in circulating tumor DNA (ctDNA) of CRC patients. The method involved ctDNA isolation, PCR-amplification of the KRAS gene, multiplex primer extension (PEXT) reaction, and detection with a multiplex strip test. We have optimized the efficiency and specificity of the multiplex strip test in synthetic DNA targets, in colorectal cancer cell lines, in tissue samples, and in blood-derived ctDNA from patients with advanced colorectal cancer. The proposed strip test achieved rapid and easy multiplex detection (normal allele and three major single-point mutations) of the clinically relevant KRAS mutations in ctDNA in blood samples of CRC patients with high specificity and repeatability. This multiplex strip test represents a minimally invasive, rapid, low-cost, and promising diagnostic tool for the detection of clinically relevant mutations in cancer patients.

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“…Electrochemical approaches were among the very first methods applied for the detection of mutational hot spots [ 25 , 109 , 110 , 111 ] and methylation marks [ 112 , 113 , 114 ], attracting attention because of their high sensitivity, multiplexing ability, fast response, low cost, and simple setup [ 115 ]. These devices could be combined with isothermal methods for DNA amplification while keeping the system simple [ 116 ]. An ISFET (ion-sensitive field effect transistor) sensor that is mainly used for pH measurement as a chemical sensor was utilized to detect PIK3CA mutations by monitoring hydrogen ion generation during the loop-mediated isothermal amplification (LAMP) of DNA samples of breast cancer cell lines ( Figure 4 D) [ 117 ].…”

Section: Recent Technology Advances For Studying Cell-released Biomarkersmentioning

confidence: 99%

Recent Advances in Device Engineering and Computational Analysis for Characterization of Cell-Released Cancer Biomarkers

Abouali

Hosseini

Purcell

et al. 2022

Cancers

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During cancer progression, tumors shed different biomarkers into the bloodstream, including circulating tumor cells (CTCs), extracellular vesicles (EVs), circulating cell-free DNA (cfDNA), and circulating tumor DNA (ctDNA). The analysis of these biomarkers in the blood, known as ‘liquid biopsy’ (LB), is a promising approach for early cancer detection and treatment monitoring, and more recently, as a means for cancer therapy. Previous reviews have discussed the role of CTCs and ctDNA in cancer progression; however, ctDNA and EVs are rapidly evolving with technological advancements and computational analysis and are the subject of enormous recent studies in cancer biomarkers. In this review, first, we introduce these cell-released cancer biomarkers and briefly discuss their clinical significance in cancer diagnosis and treatment monitoring. Second, we present conventional and novel approaches for the isolation, profiling, and characterization of these markers. We then investigate the mathematical and in silico models that are developed to investigate the function of ctDNA and EVs in cancer progression. We convey our views on what is needed to pave the way to translate the emerging technologies and models into the clinic and make the case that optimized next-generation techniques and models are needed to precisely evaluate the clinical relevance of these LB markers.

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A novel nest hybridization chain reaction based electrochemical assay for sensitive detection of circulating tumor DNA

Cited by 55 publications

References 35 publications

Rapid and ultrasensitive electrochemical detection of circulating tumor DNA by hybridization on the network of gold-coated magnetic nanoparticles

Rapid and ultrasensitive electrochemical detection of circulating tumor DNA by hybridization on the network of gold-coated magnetic nanoparticles

Rapid Multiplex Strip Test for the Detection of Circulating Tumor DNA Mutations for Liquid Biopsy Applications

Recent Advances in Device Engineering and Computational Analysis for Characterization of Cell-Released Cancer Biomarkers

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