Biosoft International, USA
Premier Biosoft develops a range of bioinformatics tools designed to accelerate research in the life sciences.
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
specific or cross species assays, AlleleID designs the fewest number of oligos possible to
identify a group of genes of interest, 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.
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.
Beacon Designer designs oligos for SYBR¨ Green, TaqMan¨, LNA spiked TaqMan¨,
MethyLight, molecular beacon, NASBA¨ 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.
Primer Premier is a program for PCR, hybridization, sequencing, nested and multiplex
primer design. It uses ClustalW multiple sequence alignment to design cross species
primers automatically in regions of low degeneracy. Primer Premier reverse translates
amino acid sequences to design degenerate primers. Designing allele specific primers and
primers for site-directed mutagenesis is made easy. Sequences can be analyzed for
restriction enzymes and motifs using extensive built-in databases.
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 7,000 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.
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
TMA Foresight is a tissue microarray data analysis tool for performing multivariate statistical
techniques such as Cox proportional hazard model to identify prognostic markers,
hierarchical clustering and Kaplan-Meier survival plots to identify prognostically significant
clusters and biomarkers and their impact on the outcome. TMA Foresight not only analyzes
the data but interprets it too, making it a useful tool for pathologists, clinicians and
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-Fusionª,
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.
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