Sensitivity and applications of the PCR Single-Strand Conformation Polymorphism method

Kakavas, Konstantinos

doi:10.1007/s11033-021-06349-2

Cited by 9 publications

(2 citation statements)

References 67 publications

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“…189 DOP-PCR can be used for genotyping polymorphism insertion and deletions, single nucleotide polymorphism, and single-stranded conformation polymorphism. 190 The most common WGA method for high amplification throughput is multiple MDA. LIANTI detects micro-copy number variation at the kilobase level with high resolution.…”

Section: Genomic Characterizationmentioning

confidence: 99%

Advances in novel strategies for isolation, characterization, and analysis of CTCs and ctDNA

Yaghoubi Naei,

Bordhan,

Mirakhorli

et al. 2023

Ther Adv Med Oncol

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Over the past decade, the detection and analysis of liquid biopsy biomarkers such as circulating tumor cells (CTCs) and circulating tumor DNA (ctDNA) have advanced significantly. They have received recognition for their clinical usefulness in detecting cancer at an early stage, monitoring disease, and evaluating treatment response. The emergence of liquid biopsy has been a helpful development, as it offers a minimally invasive, rapid, real-time monitoring, and possible alternative to traditional tissue biopsies. In resource-limited settings, the ideal platform for liquid biopsy should not only extract more CTCs or ctDNA from a minimal sample volume but also accurately represent the molecular heterogeneity of the patient’s disease. This review covers novel strategies and advancements in CTC and ctDNA-based liquid biopsy platforms, including microfluidic applications and comprehensive analysis of molecular complexity. We discuss these systems’ operational principles and performance efficiencies, as well as future opportunities and challenges for their implementation in clinical settings. In addition, we emphasize the importance of integrated platforms that incorporate machine learning and artificial intelligence in accurate liquid biopsy detection systems, which can greatly improve cancer management and enable precision diagnostics.

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Section: Genomic Characterizationmentioning

confidence: 99%

Advances in novel strategies for isolation, characterization, and analysis of CTCs and ctDNA

Yaghoubi Naei,

Bordhan,

Mirakhorli

et al. 2023

Ther Adv Med Oncol

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“…In this study, we collected blood samples from sheep with flystrike, and phenotypically normal sheep from the same flocks for a variety of sheep breeds farmed in New Zealand (NZ). We used polymerase chain reaction-single strand conformation polymorphism (PCR-SSCP; see [ 18 ] for a review of its applicability) to analyse variation in TLR9 and looked for associations between variation in TLR9 and the occurrence of flystrike.…”

Section: Introductionmentioning

confidence: 99%

Ovine Toll-like Receptor 9 (TLR9) Gene Variation and Its Association with Flystrike Susceptibility

Liu

Zhou

Gong

et al. 2021

Animals

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Toll-like receptors (TLRs) are a family of proteins that play a role in innate immune responses by recognising pathogen-associated molecular patterns derived from various microbes. Of these receptors, TLR9 recognises bacterial and viral DNA containing unmethylated cytosine-phosphate-guanine (CpG) motifs, and variation in TLR9 has been associated with resistance to various infectious diseases. Flystrike is a problem affecting the sheep industry globally and the immune response of the sheep has been suggested as one factor that influences the response to the disease. In this study, variation in ovine TLR9 from 178 sheep with flystrike and 134 sheep without flystrike was investigated using a polymerase chain reaction-single strand conformation polymorphism (PCR-SSCP) approach. These sheep were collected from both commercial and stud farms throughout New Zealand and they were of 13 different breeds, cross-breds and composites. Four alleles of TLR9 were detected, including three previously identified alleles (*01, *02 and *03) and a new allele (*04). In total six single nucleotide polymorphisms (SNPs) were found. Of the three common alleles in the sheep studied, the presence of *03 was found to be associated with a reduced likelihood of flystrike being present (OR = 0.499, p = 0.024). This suggests that variation in ovine TLR9 may affect a sheep’s response to flystrike, and thus the gene may have value as a genetic marker for improving resistance to the disease.

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Dissecting the plant genome: through new generation molecular markers

Choudhury

Deb

Kharbyngar

et al. 2022

Genet Resour Crop Evol

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Sensitivity and applications of the PCR Single-Strand Conformation Polymorphism method

Cited by 9 publications

References 67 publications

Advances in novel strategies for isolation, characterization, and analysis of CTCs and ctDNA

Advances in novel strategies for isolation, characterization, and analysis of CTCs and ctDNA

Ovine Toll-like Receptor 9 (TLR9) Gene Variation and Its Association with Flystrike Susceptibility

Dissecting the plant genome: through new generation molecular markers

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