ArticleBioinformatics (Oxford, England)2019
PrimedRPA: primer design for recombinase polymerase amplification assays.
Article in Bioinformatics (Oxford, England), 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 43 papers.
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Who cites it
43 citing papers in PubMed.
- Development of Recombinase Polymerase Amplification and CRISPR-Cas12a-Enhanced Isothermal Amplification Assays for Strongyloides stercoralis DNA Detection: A Pilot Study.The American journal of tropical medicine and hygiene · 2026Article
- Development of an HPV 16 rapid test founded in user-centered design with primary care clinicians.Analytical methods : advancing methods and applications · 2026Article
- Next-Generation Nucleic Acid-Based Diagnostics for Viral Pathogens: Lessons Learned from the SARS-CoV-2 Pandemic.Microorganisms · 2025Review
- Development of a Rapid Isothermal Assay for Detection of Adenovirus Types Important in Respiratory Infections.Influenza and other respiratory viruses · 2025Article
- Rapid Amplification and Detection of Single-Stranded Nucleic Acids for Point-of-Care Diagnosis.Small methods · 2025Review
- A novel method for semi-quantitative detection of HPV16 and HPV18 mRNA with a low-cost, open-source fluorimeter.Analytical and bioanalytical chemistry · 2025Article
- PathoGD: an integrative genomics approach to primer and guide RNA design for CRISPR-based diagnostics.Communications biology · 2025Article
- Article
- Research progress on the application of RPA-CRISPR/Cas12a in the rapid visual detection of pathogenic microorganisms.Frontiers in cellular and infection microbiology · 2025Review
- Interpreting CRISPR-Cas12a enzyme kinetics through free energy change of nucleic acids.Nucleic acids research · 2024Article
- Robust Sequence Design Space for the Isothermal Exponential Amplification of Short Oligonucleotides.Small (Weinheim an der Bergstrasse, Germany) · 2024Article
- Advances in Virus Detection Techniques Based on Recombinant Polymerase Amplification.Molecules (Basel, Switzerland) · 2024Review
- A Pan Plasmodium lateral flow recombinase polymerase amplification assay for monitoring malaria parasites in vectors and human populations.Scientific reports · 2024Article
- RT-RPA Assay Combined with a Lateral Flow Strip to Detect Soybean Mosaic Virus.The plant pathology journal · 2024Article
- Real-Time Monitoring on the Chinese Giant Salamander Using RPA-LFD.International journal of molecular sciences · 2024Article
- SARS-CoV-2 recombinase polymerase amplification assay with lateral flow readout and duplexed full process internal control.Sensors & diagnostics · 2024Article
- Identification of Viruses InfectingInternational journal of molecular sciences · 2024Article
- FBPP: software to design PCR primers and probes for nucleic acid base detection of foodborne pathogens.Scientific reports · 2024Article
- Integrating Genomic Data with the Development of CRISPR-Based Point-of-Care-Testing for Bacterial Infections.Current clinical microbiology reports · 2024Review
- A novel tailed primer nucleic acid test for detection of HPV 16, 18 and 45 DNA at the point of care.Scientific reports · 2023Article
Corrections and comments
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Authors and funding
8 authors.
Funding
Abstract
summaryRecombinase polymerase amplification (RPA), an isothermal nucleic acid amplification method, is enhancing our ability to detect a diverse array of pathogens, thereby assisting the diagnosis of infectious diseases and the detection of microorganisms in food and water. However, new bioinformatics tools are needed to automate and improve the design of the primers and probes sets to be used in RPA, particularly to account for the high genetic diversity of circulating pathogens and cross detection of genetically similar organisms. PrimedRPA is a python-based package that automates the creation and filtering of RPA primers and probe sets. It aligns several sequences to identify conserved targets, and filters regions that cross react with possible background organisms. AVAILABILITY AND IMPLEMENTATION: PrimedRPA was implemented in Python 3 and supported on Linux and MacOS and is freely available from http://pathogenseq.lshtm.ac.uk/PrimedRPA.html. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
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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.