ArticleThe Analyst2018
Impact of primer dimers and self-amplifying hairpins on reverse transcription loop-mediated isothermal amplification detection of viral RNA.
Article in The Analyst, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 69 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
69 citing papers in PubMed.
- Rapid, low-cost, and portable molecular detection of HIV-1 subtype B and HCV 1a directly from blood.Microbiology spectrum · 2026Article
- Towards deployable CRISPR-based nucleic acid detection.Progress in biomedical engineering (Bristol, England) · 2026Review
- Rapid and visually interpretable LAMP assay for detection of pathogenic Pseudomonas aeruginosa in artificial sputum.Molecular biology reports · 2026Article
- A Rapid PCR-LAMP Assay for the Early Detection of Lasiodiplodia theobromae from Basal Stem Rot-Infected Passion Fruit Plants.Molecular biotechnology · 2026Article
- Development and optimization of an easy to interpret loop-mediated isothermal amplification (LAMP) assay for the identification of bacterial pathogens causing childhood pneumonia.Frontiers in microbiology · 2026Article
- Development of RT-LAMP assay for variants of HCV in Pakistan.Brazilian journal of microbiology : [publication of the Brazilian Society for Microbiology] · 2025Article
- A streamlined CRISPR-based test for tuberculosis detection directly from sputum.Science advances · 2025Article
- Multiplexed Salivary miRNA Quantification for Predicting Severe COVID-19 Symptoms in Children Using Ligation-RPA Amplification Assay.ACS sensors · 2025Article
- Critical aspects of droplet digital reverse transcription loop-mediated isothermal amplification (ddRT-LAMP) for viral pathogens detection.Microsystems & nanoengineering · 2025Article
- Point-of-Care Diagnostic Testing for Emerging and Existing Poultry Viral Respiratory Pathogens Using Loop-Mediated Isothermal Amplification.Pathogens (Basel, Switzerland) · 2025Review
- The rapid detection of human HLA-B*27 gene based on BASIC isothermal detection.Scientific reports · 2025Article
- Establishment of a Rapid Detection Technique Based on RPA-LFD and RPA-CRISPR/Cas12a onMicroorganisms · 2025Article
- Development of a Highly Multiplexed RT-LAMP Assay for Coverage of Genetic Sequence Diversity.Analytical chemistry · 2025Article
- Coupling CRISPR-Cas and a personal glucose meter with an enzymatic reporter for portable detection of human papillomavirus in biological samples.Theranostics · 2025Article
- Rapid In-Field Detection of Airborne Pathogens Using Loop-Mediated Isothermal Amplification (LAMP).Microorganisms · 2024Article
- High-Sensitivity RT-LAMP for Molecular Detection of O'nyong-nyong (Pathogens (Basel, Switzerland) · 2024Article
- Loop-Mediated Isothermal Amplification for Diagnosis of Zoonotic Malaria.The American journal of tropical medicine and hygiene · 2024Article
- Development and validation of RT-LAMP for detecting yellow fever virus in non-human primates samples from Brazil.Scientific reports · 2024Article
- Diagnosis of Human Endemic Mycoses Caused by Thermally Dimorphic Fungi: From Classical to Molecular Methods.Journal of fungi (Basel, Switzerland) · 2024Review
- Sample preparation and detection methods in point-of-care devices towards future at-home testing.Lab on a chip · 2024Review
9 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors.
Funding
Abstract
Loop-mediated isothermal amplification (LAMP), coupled with reverse transcription (RT), has become a popular technique for detection of viral RNA due to several desirable characteristics for use in point-of-care or low-resource settings. The large number of primers in LAMP (six per target) leads to an increased likelihood of primer dimer interactions, and the inner primers in particular are prone to formation of stable hairpin structures due to their length (typically 40-45 bases). Although primer dimers and hairpin structures are known features to avoid in nucleic acid amplification techniques, there is little quantitative information in literature regarding the impact of these structures on LAMP or RT-LAMP assays. In this study, we examine the impact of primer dimers and hairpins on previously published primer sets for dengue virus and yellow fever virus. We demonstrate that minor changes to the primers to eliminate amplifiable primer dimers and hairpins improves the performance of the assays when monitored in real time with intercalating dyes, and when monitoring a fluorescent endpoint using the QUASR technique. We also discuss the thermodynamic implications of these minor changes on the overall stability of amplifiable secondary structures, and we present a single thermodynamic parameter that can be correlated to the probability of non-specific amplification associated with LAMP primers.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.