ArticleBioinformatics advances2026
TAPPR PCR assay design-targeted, automated, primer and probe retrieval for scalable molecular assay design.
Article in Bioinformatics advances, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.
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6 authors.
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Abstract
Motivation: The rapid and reliable detection of infectious disease agents is critical for effective biosurveillance, diagnostics, and outbreak response. However, existing molecular assay design methods face significant limitations in scalability, speed, and adaptability to rapidly evolving pathogens, often leading to outdated or suboptimal assays. Here, we present Targeted, Automated Primer and Probe Retrieval (TAPPR), a novel, automated pipeline for scalable molecular assay design. TAPPR uses alignment-free methods to identify conserved regions and marker sequences across large-scale genomic datasets, supporting customizable design parameters for inclusivity, exclusivity, and assay specificity. To evaluate TAPPR's performance, assays were designed for diverse microbial targets, including Mpox, Results: TAPPR demonstrates rapid and scalable data-driven molecular assay design through alignment-free estimations of conserved regions and marker regions. Through both Availability and implementation: TAPPR is available at https://github.com/mriglobal/tappr under a Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International Public License.
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