A real-time decoding sequencing based on dual mononucleotide addition for cyclic synthesis

Pu, Dan; Qi, Yuhua; Cui, Lunbiao; Xiao, Pengfeng; Zhang, Lu

doi:10.1016/j.aca.2014.09.009

Cited by 13 publications

(17 citation statements)

References 23 publications

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“…However, given any two sets of encodings, nucleic acid sequence is allowed to be sequentially reconstructed. 16 Therefore, this technology is able to use any two of the three sets of dual mononucleotide additions AG/CT, AC/GT, and AT/CG to interrogate a template in two parallel runs. Fig.…”

Section: Mechanism Of the Real-time Decoding Sequencing Technologymentioning

confidence: 99%

“…In one-base addition technology, general average read length is about 0.5 bp in a sequencing reaction when homopolymers are taken into account. 16 When the rst base is measured, three sequencing reactions are acquired in order to ensure that at least one base is measured in each template. However, in this decoding sequencing, general average read length is about 1.5 bp in a sequencing reaction when homopolymers are considered.…”

Section: Advantages Of This Technology For Htsmentioning

confidence: 99%

“…However, in this decoding sequencing, general average read length is about 1.5 bp in a sequencing reaction when homopolymers are considered. 16 Since two nucleotides are simultaneously added into each reaction, two sequencing cycles in a single sequencing run can ensure that at least one base is determined in each template. Therefore, if we assume that the reaction efficiency and time are identical in both the two technologies, the shortest read length of the decoding technology would be three times longer than that of one-base addition technology.…”

Section: Advantages Of This Technology For Htsmentioning

confidence: 99%

“…This can be corroborated in our previously published work. 16 In Fig. S1, † when a sequence is interrogated by the decoding sequencing, the minimum read length per cycle is 1.583 bp (57/36 ¼ 1.583) while a maximum read length per cycle is 2.111 bp (57/27 ¼ 2.111).…”

Section: Advantages Of This Technology For Htsmentioning

confidence: 99%

“…This strategy can increase read length and reduce error rate. 16 Until now, this technology was successfully applied to simultaneously genotype several SNPs in a single run. 17 Additionally, when it is applied to quantitatively analyze SNPs, it allows for the detection of alleles with frequencies as low as 3%, which is more sensitive than the $5% to $7% level detected by conventional pyrosequencing.…”

Section: Introductionmentioning

confidence: 99%

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A real-time decoding sequencing technology—new possibility for high throughput sequencing

Xiao

2017

RSC Adv.

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Section: Mechanism Of the Real-time Decoding Sequencing Technologymentioning

confidence: 99%

Section: Advantages Of This Technology For Htsmentioning

confidence: 99%

Section: Advantages Of This Technology For Htsmentioning

confidence: 99%

Section: Advantages Of This Technology For Htsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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A real-time decoding sequencing technology—new possibility for high throughput sequencing

Xiao

2017

RSC Adv.

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Quantitative analysis of single‐nucleotide polymorphisms by pyrosequencing with di‐base addition

Pan

Liu

et al. 2017

Electrophoresis

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We have developed and validated a novel method for quantitative detection of SNPs by using pyrosequencing with di-base addition (PDBA). Based on the principle that the signal intensity is proportional to the template concentration within a linear concentration range, linear formula (Y = AX + B) for each genotype is established, and the relationship between two genotypes of a single SNP can be resolved by corresponding linear formulas. Here, PDBA assays were developed to detect variants rs6717546 and rs4148324, and the linear formulas for each genotype of rs6717546 and rs4148324 were established. The method allowed to quantitatively determine each genotype and showed 100% accordant results against a panel of defined mixtures. A set of 24 template fragments containing variants rs6717546 or rs4148324 was tested to evaluate the method. Our results showed that allele frequency of each genotype was accurately quantified, with results comparable to those of conventional pyrosequencing. Furthermore, this method was capable of detecting alleles with frequencies as low as 3%, which was more sensitive than ∼5 to ∼7% level detected by conventional pyrosequencing. This method offers high sensitivity, reproducibility, and relatively low costs, and thus could provide a much-needed approach for quantitative analysis of SNPs in clinical samples.

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RETRACTED: Bionic‐structure thermo‐responsive (best) hydrogels with controllable layer for high‐capacity DNA data storage

Fei

Cheng

et al. 2022

Nano Select

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Here, a new‐rising technology (DNA storage) in which the binary digital information/data is converted into a DNA sequence composed of distinct nucleotides, providing a dense, stable, energy‐efficient, and sustainable data storage solution is studied. In principle, this technology offers substantial data density. However, the theoretical limit of DNA storage has not been achieved yet. In this study, a new DNA storage system is proposed based on hydrogels with SiO2 layer (their pore size can be regulated). The highest data density of the hydrogels is obtained to be 6.3 × 109 GB g−1. Further, by coupling them with digital polymerase chain reaction (dPCR), the recovery limit reaches five copies of DNA. Subsequently, three‐dimensional (3D) printing is used to explore the effect of macrostructures on the DNA storage capacity. Finally, bionic‐structure thermally‐responsive robust (Best) hydrogels with four different structures are developed, which achieve a data density of 1.04 × 1010 GB g−1.

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A real-time decoding sequencing based on dual mononucleotide addition for cyclic synthesis

Cited by 13 publications

References 23 publications

A real-time decoding sequencing technology—new possibility for high throughput sequencing

A real-time decoding sequencing technology—new possibility for high throughput sequencing

Quantitative analysis of single‐nucleotide polymorphisms by pyrosequencing with di‐base addition

RETRACTED: Bionic‐structure thermo‐responsive (best) hydrogels with controllable layer for high‐capacity DNA data storage

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