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Title: PCR Amplicon Prediction from Multiplex Degenerate Primer and Probe Sets

Assessing primer specificity and predicting both desired and off-target amplification products is an essential step for robust PCR assay design. Code is described to predict potential polymerase chain reaction (PCR) amplicons in a large sequence database such as NCBI nt from either singleplex or a large multiplexed set of primers, allowing degenerate primer and probe bases, with target mismatch annotates amplicons with gene information automatically downloaded from NCBI, and optionally it can predict whether there are also TaqMan/Luminex probe matches within predicted amplicons.
Authors:
Publication Date:
OSTI Identifier:
1231672
Report Number(s):
Simulate PCR, v1.0; 002895WKSTN00
LLNL-CODE-642995
DOE Contract Number:
AC52-07NA27344
Resource Type:
Software
Software Revision:
00
Software Package Number:
002895
Software Package Contents:
Media Directory; Software Abstract; Media includes Source Code; / 1 CD-ROM
Software CPU:
WKSTN
Open Source:
Yes
Source Code Available:
Yes
Research Org:
Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States)
Sponsoring Org:
USDOE
Country of Publication:
United States

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