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How Species Were Identified Historically
The field of disease diagnosis and drug development has seen a rapid replacement of culture based methods for bacterial and species identification by faster and more reliable molecular based techniques such as real time PCR and microarrays. The reason for the success for these techniques is the ease with which one can identify a species from a sample collected from complex sources such as air, soil, or water.
AlleleID® is the only program that designs synthetic probes for MLPA or Multiplex Ligation-dependent Probe Amplification technique introduced by MRC Holland enabling the researcher to extend the technique when appropriate kits are unavailable.
How AlleleID® Designs a Cross Species/Taxa Specific Assay
AlleleID® designs both real time PCR assays, including molecular beacons, TaqMan® probes, TaqMan® MGB, and SYBR® Green primers, and microarrays for designing a universal probe for taxa discrimination.
When designing a taxa specific assay, AlleleID® designs a single common probe to identify a taxa or a group of organisms from the mix. For challenging problems when such designs are not feasible, AlleleID® attempts the design by minimizing mismatches, avoiding them especially towards the more problematic 3' end.
Alternative Splicing
DNA microarray is perhaps the most useful technology for splice variant studies. AlleleID® includes the ability to design microarray probes for detecting alternative splicing and gene splicing events.
AlleleID® designs two types of microarray probes that we call junction probes and exon probes, giving the user complete control over the design parameters.
AlleleID® detects the alternative splicing events by designing probes for each junction and/or for each splice variant created.
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