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Updated: Oct 20, 2026
Multiplex PCR and Reverse Line Blot Hybridization Assay (mPCR/RLB)
Published on: August 6, 2011
ProbeDesigner: for the design of probesets for branched DNA (bDNA) signal amplification assays
S Bushnell1, J Budde, T Catino
1Chiron Diagnostics, 333 Coney Street, Walpole, MA 02032, USA.
Motivation:
The sensitivity and specificity of branched DNA (bDNA) assays are derived in part through the judicious design of the capture and label extender probes. To minimize non-specific hybridization (NSH) events, which elevate assay background, candidate probes must be computer screened for complementarity with generic sequences present in the assay.
Results:
We present a software application which allows for rapid and flexible design of bDNA probesets for novel targets. It includes an algorithm for estimating the magnitude of NSH contribution to background, a mechanism for removing probes with elevated contributions, a methodology for the simultaneous design of probesets for multiple targets, and a graphical user interface which guides the user through the design steps.
Availability:
The program is available as a commercial package through the Pharmaceutical Drug Discovery program at Chiron Diagnostics.
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