DeCypher® 7.6.0 Adds Tera-Probe™ for high sensitivity oligo searching, extends GeneDetective™ and speeds TBLAST searches.

Improvements for the DeCypher and CodeQuest™ Biocomputing Systems:

Tera-Probe™ - Map oligos to the genome with unprecedented speed and Smith-Waterman specificity. Tera-Probe compares 330 billion cells per second, which is 16,500x faster than running Smith-Waterman (ssearch) on a CPU. This makes it possible to map 10,000 25-mers to the human genome per hour on TimeLogic’s smallest systems. Speed your searches for off-target siRNAs, optimal microarray probes, and map short-read sequencing data to the genome faster than ever.

Alignment Context – displays the characters outside of an alignment, which is useful in finding upstream or downstream sequences such as promoter elements

Higher System Throughput – With improved multithreading, DeCypher sustains processing across multiple DeCypher Engines within a single server. In servers such as the 4U HP DL585 or Sun Microsystems V40z, DeCypher can drive 6-8 DeCypher Engines, making it one of the highest density computing platforms in existence.

Improved Remote Homology Searching – Translated searches (Tera-BLASTX, Tera-TBLASTN, Tera-TBLASTX) with small query sets (1.5 MB or less) are now 6X faster, improving your ability to identify remote homologs.

GeneDetective™ users can now map Hidden Markov Models—in addition to proteins and nucleic sequences—to genomic DNA for accurate gene models. A graphical viewer helps you quickly spot alternatively spliced transcripts. Use the multiple sequence alignment output to help you design exon-specific primers, and generate putative transcripts for further analysis of your gene models. GeneDetective now brings the full set of GeneWise features to the DeCypher platform.

NCBI HTML Output Format – Simplify integration of DeCypher output for data parsing scripts and workflows by formatting Tera-BLAST and Smith-Waterman results in familiar NCBI BLAST HTML output.

Database Building – DeCypher’s database file format now supports unlimited characters for more detailed target locus, accession and description names.

New Alignment Option - Query Global (qgsw) – This aligns the query globally to a local part of the target locus, and forces all query characters to be used in the alignment. Great for oligo searches 

Fixes – Tera-BLASTP score formats now match NCBI BLASTP. Also, DeCypher can effectively search 200GB+ databases, such as the entire NCBI GeneBank database. A search comparing 14,000 sequences to GenBank would not complete on a 256-CPU cluster, yet DeCypher finishes in 3-12 hours!

Media Contact
For company information, please contact:

Christopher Hoover
Marketing Manager
Phone: 760-431-1263 ext 350
Email: hoover@activemotif.com