AlleleID® designs probes and primers for pathogen detection, bacterial identification, species identification and taxa discrimination using qPCR assays and microarrays. It aligns sequences to locate differences in DNA and to find conserved regions. It then proceeds to design oligos to amplify and detect only the species or strains of interest from the mix. To design taxa/cross species assays, AlleleID designs the fewest number of oligos possible, resulting in cost savings. AlleleID supports assays for selectively amplifying cDNA from gDNA and designs oligos to detect splice variants by designing across intron/exon junctions. In addition, it designs probes for MLPA® assays and for PamGene's PamChip® microarrays to detect mutations and copy number changes. (per Win & Mac)

Array Designer is a comprehensive desktop tool to efficiently design hundreds of specific oligos for SNP detection or expression studies or hundreds of PCR primer pairs for cDNA microarrays in seconds. It can automatically design whole genome, tiling, and resequencing arrays. All probes are checked for specificity by using BLAST to identify regions of cross homology and automatically avoiding these areas. (per Win & Linux)

Beacon Designer designs oligos for SYBR® Green, TaqMan®, LNA spiked TaqMan®, MethyLight, molecular beacon, NASBA®, Scorpions® and FRET assays. Highly specific primers are designed by avoiding cross homologies found by automatically interpreting BLAST search results. The program ensures efficient hybridization and high yield by avoiding template secondary structures. Beacon Designer evaluates pre-designed assays and designs compatible oligos to extend the designs. It also designs beacons and TaqMan® for single tube multiplex experiments. (per Win & Mac)

PrimerPlex designs specific capture probes for direct hybridization assays and primers for Allele Specific PCR Extension (ASPE), for multiplexed SNP genotyping applications. The oligos are designed after avoiding the regions of homology identified by a BLAST search and are screened for cross homologies to ensure high signal strength. (per Win & Mac)

SimGlycan™ predicts the structure of a glycan from the MS/MS data acquired by mass spectrometry, facilitating glycosylation and post translational modification studies. SimGlycan™ accepts the experimental MS profiles generated by a mass spectrometer, matches them with its own database of theoretical fragmentation of over 8,000 glycans and generates a list of probable glycan structures. Each structure is scored to reflect how closely it matches your experimental data. Other biological information for the probable glycan structures such as the glycan class, reaction, pathway and enzyme are also made available for easy reference. (per Win)

SimVector is a web savvy program equipped with all the drawing tools necessary to publish engineered plasmid catalogs, as well as to simulate and draw plasmid constructs for Gateway®, TA, restriction or other popular cloning techniques. Export images in vector graphic format to produce the highest quality images for presentations in MS PowerPoint or publication in journals or vector catalogs using Adobe Illustrator. Alternatively, choose popular bitmap formats or export in ready-to-host web pages. With its powerful drawing features, it is easy to enhance vector maps with patterns, colors, fills, curved text and annotations. (per Win)

TMA Foresight is a tissue microarray data analysis tool for performing multivariate statistical techniques such as Cox proportional hazard model to identify prognostic markers, Principal Component Analysis, hierarchical clustering and Kaplan-Meier survival plots to identify prognostically significant clusters and biomarkers and their impact on the outcome, and correlation analysis to measure the strength of association between variables. TMA Foresight not only analyzes the data but interprets it too, making it a useful tool for pathologists, clinicians and researchers. (per Win & Mac)

Xpression Primer is a web savvy Windows and Mac program with a sophisticated algorithm for designing optimal tagged primers to amplify ORFs for expression cloning systems. It provides comprehensive support for popular systems such as Gateway®, BD In-Fusion™, epitope and TOPO® tools. The program is flexible enough to work with virtually any expression system of researcher's choice. Xpression Primer also designs optimal sequencing primers to verify the transcripts.