Bioinformatics

For Molecular assay design Progenus extensively calls up on bioinformatics.

To that end Progenus has developed proprietary software module library to:

  • Search for nucleotidic sequence(s) specific to one or several species by sequence alignment against all the sequences present in public databases such as GenBank.
  • Compute numerous properties of any type of nucleotide sequences such as DNA, RNA, PNA (Peptide Nucleic Acids) and also amino-acids.
  • Design primers for “Hot” and “Cold” (isothermal) PCR-based assays and related probes such as TaqMan, TaqMan MGB, Molecular Beacons, Scorpions, MLPA (Multiplex Ligation-dependent Probe Amplification, ...
  • Set up Multiplex PCR assays.
  • Test PCR unicity and specificity.
  • Perform in-silico PCR to ensure the quality and the specificity of the binding of the primers to the targeted sequence, ...
  • Analysis, modelling and optimization of expression data (amplification and detection).
  • The design of optimized proprietary algorithms and formulae ensuring a more accurate and robust prediction of decisive parameters such as the melting temperature, ΔCt, PCR efficiency  and ΔG.

 

The clear benefits for the customers of extensively using Progenus bioinformatics' expertise in the design of molecular assays are:

  • PCR test sensitivity improvement: our approach allows electronic testing of the primer and probe design. It is possible to have a strong view on the number of detected sequences/species whatever the test specificity (no amplification of what does not need to be) or the sensitivity (amplify as many sequences that need to be detected).
  • PCR detection speed increase: thanks to the theoretical optimization of the primers, it is possible to shorten the amplification cycles hence the whole detection time of the test.
  • Primers and probes optimization in relation with the amplification response curves.

Additional information