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OMP Developer Edition Features

A unique combination of capabilities and features makes OMP Developer Edition the prefered software for high throughput DNA & RNA analysis and design. These features include:

1. Multiplex capability: OMP picks primers and probes which do not cross hybridize with each other and other targets, saving time, resources, and costs related with repeated optimizations.
   
2. Microarray Analysis: OMP Developer Edition allows users to simulate the performance of Microarrays. OMP Developer Edition can quickly determine interactions between fixed probes and intended or unintended targets. Is your microarray not performing as expected? OMP Developer Edition can tell you why.
   
3. Secondary Structure Prediction: Problematic genes or sequences can make probe and primer design frustrating and time consuming. Let OMP Developer Edition show you where secondary structures motifs occur in your gene of interest, so that you can safely design around these areas.
   
4. Probe and Primer Design: Design probes and primers to be specific to your needs. Is binding energy the most concerning parameter? Perhaps secondary structure or constant TM is more of a concern. OMP Developer Edition can be tailored to design probes and primers specifically for almost any nucleic acid technology and make sure that your oligos are exactly what you are expecting.
   
5. PCR Considerations: OMP Developer Edition has the ability to analyze oligos for their suitability in PCR based reactions. Do you have a 10 plex PCR and wonder what kind of extensible artifacts are being produced and in what kind of concentration? OMP Developer Edition not only can identify problem causing artifacts, but can determine their relative significance as well.
   
6. Suboptimal Structures: OMP Developer Edition can determine the optimal secondary structure of any sequence as well as the suboptimal (less likely) folded structures of the sequence. Suboptimal structure may stringly contribute to the failure of many assays. OMP Developer Edition will help you identify suboptimal structures and determine their role in your assays.
   
7. Customizable Scripting Capability: OMP Developer Edition allows users to develop customizable scripts to run with the OMP engine. OMP Developer Edition uses a robust Boulder I/O text format designed to universally be compatible with any major programming language such as Java, PERL, C/C++/C# or Visual Basic.
   
8. Ease of Use: OMP Developer Edition can be used in tandem with Visual OMP, through a simple dialog interface or throught the command line interface. PERL scripts are made available as templates for designing valid input and output files.
   
9. True HighThroughput Capabilities: OMP Developer Edition is a fully programmable, customizable application with the ability to easily handle fold 10 sequences, or 1000000 sequences.
   
10. Measures Binding Efficiencies: Simulation Module simulates all secondary structures for target (optimal and suboptimal), primers (optimal and suboptimal), homodimers, target and primer heterodimers, given specified conditions. Values for Tm, dG, percent bound, and concentration for all species are presented. Most important to the bench science, OMP predicts the binding efficiency between primer/probe with target in a single or multiplex assay.
    
11. Versatile applications: Users may use OMP for ANY assay involved with nucleic acid hybridization. RNA, DNA, single or multiple probe design, microarrays, TaqMan assays, genotyping, single and multiplex PCR, secondary structure simulation, sequencing, genotyping.

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