Primo Multiplex 3.4: Multiplex PCR Primer Design
Click here for more Primo family
of PCR primer design tools.
Multiplex PCR amplifies multiple DNA fragments in one PCR reaction. One frequent problem is that although individual PCR works well, when all in one tube, they don't. One of the reasons is that primers form primer-primer dimers. As the number of primers increase in a multiplex PCR, the possibility of
dimers increases exponentially. Subtle differences in
primer melting temperature and base composition may results in bigger
differences in amplification efficiency when primers are competing
for enzyme and template.
Primo Multiplex searches for sets of primers that are consistent in characteristics and don't
form dimers for any combination of the primers.
See user instruction.
For normal PCR primer design, please use
Primo Pro 3.4 which
reduces PCR noise by lowering probability of random primering.
Primo Online runs on Java-enabled browsers|
PC: Internet Explorer 5.5 or higher and Netscape 4.08 or higher
Mac: Internet Explorer 5.0, IE5.1.4 or higher (IE5.1 will not work because of a bug.)
Need to raise a better antibody? |
Please use online Abie Pro 3.0 for
peptide antibody design.
Compare Primo to other online primer design software and find
Oligo synthesis facilities
The Electronic Protocol Book Table of contents
An electronic protocol book with 500 protocols and
100 recipes. A great quick and practical reference for bench scientists
as well as for new students. (Available for both PC and Mac.)
Get a copy
BioToolKit 300 (PC and Mac)   Order download
Primo 3.4 (PCR primer design) and Abie 3.0 (peptide antibody design)
are parts of functions included in BioToolKit 300 , a
collection of tools frequently used by bench biomedical scientists:
Primo 3.4 PCR primer design: |
Pro --- Standard PCR and RT-PCR.
Multiplex --- Multiple PCRs in one tube.
Degenerate --- Degenerate PCR for one or more genes.
Optimum --- Optimize codon usage. Gene Synthesis.
Diverse --- Most diverse regions of a family.
Unique --- Amplify one gene from a family.
MSP --- Methylation specific PCR.
Random --- Random primers for fingerprinting.
Profile --- Profile 10s-1000s of genes.
Abie Pro 3.0: Select antigenic peptide for antibody production and reduce background cross-reactions.
Centrifugation speed/force conversion for any rotor.
Molecular weight calculation for oligos, peptides, and chemicals.
Molar calculator for concentration-related calculations.
Spectrometer calculator for DNA and protein concentration.
Stock recipe calculator for tens of commonly used stock solutions.
Units conversion in 14 categories.
Master cocktail mix calculator for multiple reactions.
Clinical: time/date conversion, body-mass index, body area.
MicroHelper: Merge, filter, transform, and normalize microarray data.
Godlist Manager: Batch GenBank search for info or sequence. Generate web links to databases.
Heatmap Viewer: Display high-throughput data using colors. Save image as JPEG file for presentation.
LabLabel: Label and barcode printing
LabInventory: Practical inventory database
PrimerBase: Organize primers.
Searchable by name and sequence.
PeptideBase: Database for peptides.
GradeBook: Grade book for professor/TA
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