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Accelerated Bioinformatics Algorithms
CodeQuest™ is designed to be a broadly useful appliance for your bicomputing needs. It includes a full complement of accelerated applications that are processed on 1 or 2 installed DeCypher Engine FPGA-cards. These applications include:
- Tera-BLAST™ - ideal for rapid gene
and protein annotation. Tackle huge EST annotation projects by comparing large batches of ESTs to databases like GenBank nt or Swiss-Prot. Tera-BLAST is also ideal for mapping your 454™ sequence data to the genome.
- Tera-Probe™ - uniquely combines
sensitivity and performance for oligo searching. Standard Tera-BLAST can map 500,000 oligos (exact match) per hour, but if you need near-Smith-Waterman sensitivity, Tera-Probe let's you compare 10,000 per hour at high sensitivity. This makes it ideal for SNP mapping, locating potential microarray probes and primers, and for identifying off-target siRNAs.
- DeCypherHMM™ delivers blinding speed for Hidden
Markov Model and ProfileSearch searches. Compare genes and proteins to PFAM, TIGRfam and Superfamily to identify protein families. Or compare your HMM models to protein sequence databases to see what new sequences fall into a particular family.
- GeneDetective™ allows you to model
genes by mapping EST, cDNA, protein sequences—or even HMM models—to genomic DNA. The graphical output can help you investgate alternatively spliced cDNAs, and the multiple sequence alignments and putative transcript listing provide sequence-level detail for you to amplify specific splice variants.
- Smith-Waterman and Framesearch are the de facto standards for robust cross-genome protein comparisons. CodeQuest also includes Symmetric Framesearch (SFI) for frame-tolerant comparisons in both query and target database files to capture evolutionarily distant connections.
| The AKS2 knowledge mining software system is an ideal complement to CodeQuest. AKS2 helps you establish connections between genes, diseases, symptoms and chemical compounds and zero in on the literature that reveals these connections! |
Turn your lab into a core facility with CodeQuest's throughput
A single
CodeQuest workstation provides you with the performance of 50-1000
CPUs, plus it adeptly handles huge searches and can manage a queue of tens of thousands of pending search jobs. Need to anotate 300,000 ESTs? CodeQuest can handle it and will give you answers in hours rather than
weeks.
The high performance FPGA-based accelerator engines deliver fast results, so you can be more experimental in your approach. Run more comprehensive tests to validate wetlab results, and share access with the rest of your department or collaborators.
CodeQuest represents a high-value alternative to scheduling time on a cluster, dedicating personnel to maintaining your own cluster, and expensive research computing outsourcing. It brings several fold the performance of a 64-CPU cluster, yet costs less than 10 CPUs. Get in control of your annotation projects and database curation efforts with CodeQuest today!
Request a quote on
a CodeQuest workstation today!
Or call us today for immediate answers:
877-222-9543 ext. 350 Toll Free
760-431-1263 x350 Direct
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