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Unity in sequencing
November 2009
by Jeffrey Bouley  |  Email the author


KATRINEBJERG, Denmark—CLC bio rolled out two big announcements in October to enhance its position in the next-generation sequencing market by integrating its workbench and server products with other companies' technologies: the first with BIOBASE, and the second with GenoLogics.
In a move they hope will give genomics researchers worldwide a "world class solution," CLC bio and Wolfenbüttel, Germany-based BIOBASE have entered into a partnership to integrate BIOBASE's comprehensive TRANSFAC database with CLC bio's workbenches and award-winning server solution.  
The aim is to give researchers who are working with next-generation sequencing data "instant access to experimentally proven knowledge" for their genomics analyses, the companies note. They expect to achieve this by combining what they see as CLC bio's cutting-edge algorithms and user-friendly platform with BIOBASE's best-in-class collection of eukaryotic gene regulation data.
The deal was announced in tandem with the two companies' attendance at the Biotechnica/Bio-IT World Europe conference in Hannover, Germany in early October, but in fact, CLC bio CEO Thomas Knudsen reports that CLC bio had already started integrating TRANSFAC as a plug-in into their workbenches and enterprise platform. He expects that those efforts will pay off with a commercially available product for release in spring 2010.
In addition, this relationship also calls for the two companies to soon begin promoting and selling each other's solutions.
"It's a strategic goal for us to partner with companies who can deliver added benefits to our solutions," Knudsen says, "and together with BIOBASE, we're essentially forming a scientific dream team in the genomics era, by combining our award-winning platform with the best company in the world at gathering and indexing biological information."  
"CLC bio offers a world class platform for user-friendly, fast and advanced bioinformatics analysis of sequence data," adds Michael Tysiak, CEO of BIOBASE. "Together, we can tremendously enhance researchers' output, by giving them an integrated workflow and reporting tools which combine the best algorithms within genomics with the best gene regulation data."   BIOBASE's TRANSFAC database—along with various supplemental databases—focuses on eukaryotic transcriptional regulation and contains data on transcription factors, their target genes and regulatory binding sites.
CLC bio, for its part, offers a number of workbench products. CLC Main Workbench, for example, creates a software environment for conducting large numbers of advanced DNA, RNA, and protein sequence analyses and gene expression analysis. There is also the CLC Genomics Workbench, for analyzing and visualizing next-generation sequencing data, while integrating most researchers' typical sequencing workflows. The company also offers the CLC DNA Workbench, CLC RNA Workbench and CLC Protein Workbench.  
Almost two weeks after that announcement, CLC bio and Victoria, British Columbia, Canada-based GenoLogics reported that they will provide an informatics and analysis solution, optimized for next-generation sequencing research, that addresses data management and data analysis in a single integrated system.  
This end-to-end solution is expected to have a significant positive impact on researchers' ability to aggregate raw data across next-generation sequencing experiments to get to biological meaningful results faster. This will be accomplished by combining GenoLogics' lab and data management system for genomics, known as Geneus, with the CLC Genomics Server, CLC Genomics Workbench and CLC NGS Cell.  
"With this collaboration, our enterprise platform expands with an end-to-end workflow that couples world-class LIMS functionalities like tracking of samples and data as well as reporting, with our comprehensive next-generation sequencing analysis capabilities, to the obvious benefit of our customers," Knudsen says. "This way researchers can keep up with the vast volumes of sequencing data being churned out by high-throughput sequencing machines, and quickly turn the massive amounts of raw data into meaningful results."  
The combined solution will provide users with a well-organized and intuitive graphical interface for carrying out an extensive range of high-performance computing accelerated analyses within genomics, transcriptomics and epigenomics, notes Sal Sanci, vice president of products for GenoLogics.
"This collaboration combines two proven systems, into one unified environment for data management and comprehensive analysis," Sanci notes. "We know our customers need a unified end-to-end solution and have asked for an integration between Geneus and CLC bio's NGS platform, and now it's available."
Code: E110909



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