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1. PickSNPTM – for SNP selection of large-scale genotyping. The program is particularly optimized for selection of uniformly distributed set of SNPs over large chromosomal regions or over the whole genome. This is often required for determination of haplotype structure in certain regions of the chromosome. Haplotype tag SNPs can be used for SNP selection only in genomic regions where haplotype block structure is known. User-defined number of SNPs can be selected from the human genome from certain chromosomes, certain chromosome regions, and around certain genes. Users can specify additional information such as: -
location relative to genes (exonic SNPs or genic SNPs) 2. ProbeDesignerTM - for designing APEX primer The program is for choosing APEX primers that are suitable for SNP genotyping by APEX. APEX primer testing is necessary to avoid false or failed signals due to secondary structure, dimer formation and direct repeats. 3. BioPrimerTM- for PCR primer design The program automatically select optimal PCR primers for large datasets of human SNPs. All PCR primers are tested against the human genome sequence to ensure that unique PCR product is amplified (see next paragraph for details). Template sequence is automatically masked to avoid: -
design of PCR primers over known SNPs Our software system can design 100 000 high-quality PCR primers in less than one hour on typical workstation with one Pentium4 processor. 6. ChipTesterTM– for testing SNP technological mutual suitability for APEX. The software controls the technological mutual suitability of different SNPs that are need be analyzed on one chip, substitute SNPs which APEX primers can interact with PCR product of another SNP. The programs are developed for Asper Biotech Ltd. |
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