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CLC Genomics Workbench 2.0, Pantheon, GCK 3.0, BoostServe Extreme, Sapphire LIMS

CLC Bio has released CLC Genomics Workbench 2.0. New features include an “extremely fast” algorithm for the assembly of short reads; lower memory requirements that allow users to perform reference assembly against all human chromosomes on a standard computer; masking of genomic regions such as repeat or coding regions to lower the genomic complexity and facilitate the fast mapping of CHiP-seq data or exon captured data; and the ability to combine data across platforms and experimental protocols, such as single-read and paired-end data.
CLC Genomics Workbench 2.0 runs on Mac OS X, Windows, and Linux, including 64-bit versions.

Tripos International announced that it will launch a new computer-aided drug design platform called Pantheon later this year. A beta version of the software will be launched before the end of the year and the company is targeting a commercial release for the first quarter of 2009.
According to the company, Pantheon includes several “basic” cheminformatics and modeling tools and streamlined workflows that enable users to share results. Pantheon will also serve as an underlying engine for an additional range of “significant molecular discovery solutions” from Tripos and third-party vendors, the company said.

Textco BioSoftware has released of an enhanced version of its Gene Construction Kit DNA plasmid mapping software, GCK 3.0.
GCK 3.0 includes a number of new features including a PCR analysis module that allows a user to select a region of DNA, choose the amplification parameters desired, and have the program suggest the matching primers surrounding the target region. A shotgun cloning module saves time from copying and pasting between source and target vectors to produce a library. A database search module lets users search various databases simultaneously.

Progeniq has launched BoostServe Extreme, an accelerated bioinformatics platform that provides the equivalent of more than 1,000 CPU cores in less than one-tenth the space of a server rack, the company said.
BoostServe Extreme accelerates bioinformatics algorithms such as Smith-Waterman, ClustalW, HMMsearch, and HMMpfam.

LabVantage said this week that its Sapphire LIMS has been awarded caBIG Bronze Compatibility Certification by the National Cancer Institute Center for Bioinformatics.

LabVantage said the certification confirms that the software allows programmatic access to data from an external resource; permits use of publicly accessible controlled vocabularies as well as local terminologies; maintains sufficient data element description built using controlled terminology with proper metadata storage; and offers electronic diagrammatic representation of the information model.

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