OligoDesign — AI Oligo Design Evaluator

OligoDesign is a validation-first oligo design evaluator for primers, probes, and molecular beacons. Paste any oligo — hand-designed or generated by an AI tool — and get a structured oligo design evaluation: a verdict, risk drivers, recommended actions, and explicit assumptions, backed by published nearest-neighbor thermodynamic models. Other tools give you numbers; OligoDesign gives you judgment.

Evaluators / Judges

• Single Oligo Judge — role-aware evaluation of one primer or probe sequence.
• Primer Pair Judge — template-aware PCR primer pair evaluation: Tm balance, clamp quality, dimer risk.
• Molecular Beacon Judge — stem-loop architecture and loop-target fit evaluation.
• Tm Mismatch Judge — variant/mismatch binding evaluation for inclusivity and specificity.
• Pool Compatibility Judge — multiplex primer-dimer risk screening.
• ePCR Mapper — in-silico primer specificity mapping across sequence databases.

Learn more

• What is oligo design evaluation?
• Methodology and citations
• Primer and probe design education
• Contact

Built by Dr. Lifeng Lin, a bioinformatics scientist in nucleic acid assay development for in vitro diagnostics since 2010. OligoDesign is a decision-support and educational tool; always independently verify designs before synthesis or regulated use.