Bio Screening Industry News

Archive for the 'Genomics & Pharmacogenomics' Category

May 10, 2009

CLC bio’s enterprise platform wins award at Bio-IT World Expo in Boston

Boston, Massachusetts, USA — April 30, 2009 — CLC bio’s enterprise platform for Next Generation Sequencing data analysis, CLC Genomics Server, has just been awarded the “Best of Show” prize at the Bio-IT World Conference & Expo 2009 - an award judged by a team of Bio-IT World magazine editors and leading industry experts.

Bio-IT World Editor-in-Chief Kevin Davies, PhD., comments, “Each year we go through a process where our judging panel debates the technical merits and likely business impact of the different technologies presented at the Best of Show awards. CLC bio’s success this year clearly reflects the importance of the incredibly exciting Next Generation Sequencing space, with a solution that is obviously gaining traction with it’s capabilities to handle the immense data management and analytical challenges required in this area.”

“Judging on several criteria, such as the importance of the problem being addressed and the elegance of the solution provided, it was clear to the judging panel that CLC Genomics Server, and the flexible plug-in structure it provides, delivers an ideal platform for researchers working with Next Generation Sequencing data.” says M. Michael Barmada, PhD. - member of the “Best of Show” judging panel and Director of the Center for Computational Genetics at the Graduate School of Public Health, University of Pittsburgh. “It’s nice to see complex computational algorithms and routines presented with an elegant interface in a user-friendly way, which lowers the technical barriers for all researchers working with high-throughput sequence data analysis.”

CLC Genomics Server is CLC bio’s advanced and powerful bioinformatics solution which is built upon a powerful and modern three-tier server architecture, that yields flexible options of executing centralized services, easy integration with other applications and services, powerful database communication and data integration, and secure access control framework and central action logging. Customers already using this enterprise platform, includes J. Craig Venter Institute, Albert Einstein College of Medicine, Veridex, and University of California - Berkeley. Read more about this solution here:
http://www.clcbio.com/index.php?id=1376

November 20, 2008

GEN Reports on the Trend Toward Predictive Toxicogenomics

NEW ROCHELLE, N.Y., Nov 19, 2008 /PRNewswire via COMTEX/ — Biotech scientists increasingly are applying genomics technologies to toxicology research to better understand the effects of novel drug candidates on a variety of organ systems, reports Genetic Engineering & Biotechnology News (GEN). They are especially interested in figuring out a new compound’s mechanism of action and eventually developing a predictive toxicology technique, according to the November 15 issue of GEN. ( http://www.genengnews.com/articles/chitem.aspx?aid=2675)

“Toxicogenomics, which is essentially gene-expression profiling, is the next step up from basic toxicology studies,” says John Sterling, Editor-in-Chief of GEN. “It is a more complex approach, and it will take some time before it becomes a regular tool in the technology armentarium of drug discovery and pharmaceutical scientists.”
So far most companies are focusing on toxicogenomics primarily as a method to explore mechanisms of action rather than to predict toxicity. Roche, for example, uses toxicogenomics to generate hypotheses when trying to unravel the cellular machinery underlying toxicity responses, which then are tested more thoroughly using other assays. Novartis is employing known toxic compounds to develop the techniques to understand the mechanistic actions of toxicity. Such screening led to the recent validation of biomarkers for kidney toxicity.
Groups such as The C-Path Predictive Safety Testing Consortium are examining published toxicogenomics multiple gene biomarkers or signatures and trying to validate those signatures across laboratories.
Also covered in the GEN article is work being carried out by Amgen, Entelos, Lilly Research Laboratories, Hamner Institutes for Health Sciences, and the Health and Environmental Sciences Institute.

SOURCE Genetic Engineering & Biotechnology News


	

November 11, 2008

Applied Biosystems and Asuragen Collaborate with the Critical Path Institute to Improve Drug Toxicity Screening

FOSTER CITY, Calif., Nov 06, 2008 (BUSINESS WIRE) — Drug toxicity accounts for billions of lost dollars to the pharmaceutical industry each year and is a leading cause of pre-clinical drug failures. The U.S. Food and Drug Administration (FDA) and other regulatory organizations have called upon the pharmaceutical industry to develop more effective tools to help avoid these costly failures, reduce the number of failed compounds, and bring better drugs to market sooner. To help address this challenge, Applied Biosystems Inc. and Asuragen, Inc., a provider of pharmacogenomic services, are collaborating with the Critical Path Institute’s Predictive Safety Testing Consortium to develop a predictive gene signature panel that will allow pharmaceutical companies to quickly and easily screen potential therapeutics for toxic effects in pre-clinical samples.
As part of the collaboration, Critical Path Institute (C-Path), Applied Biosystems, and Asuragen, Inc. will partner to develop a panel of assays with gene targets determined to be associated with carcinogenicity in laboratory rats, a common model organism for pharmaceutical testing. The collaborators will also use the Applied Biosystems assays to determine and differentiate effects that are genotoxic from non-genotoxic modes of action to assist in risk assessment. The new biomarker panel will be based on Applied Biosystems’ TaqMan(R) Gene Signature Array and real-time PCR technology.
C-Path is a publicly funded, nonprofit research and education institute. The institute was established in 2005 to create and support collaborations among industry, academic, and governmental scientists that advance the FDA’s Critical Path Initiative, which is an endeavor to modernize the process for the development of medical products, including drugs, diagnostics and medical devices. The Critical Path Opportunities List, published by the FDA in March 2006, presents examples of how new scientific discoveries in genomics and proteomics, imaging, and bioinformatics could be applied to improve the accuracy of the tests used to predict the safety and efficacy of investigational medical products.
“The development of robust turnkey assays to speed development of therapeutics for patients is one of the fundamental goals of the Critical Path Initiative, for which we believe we can make a difference working with partners such as Applied Biosystems and Asuragen,” said William B. Mattes, Ph.D., director of C-Path’s Predictive Safety Testing Consortium. “We expect this collaboration will facilitate broader utility of genomic biomarkers of toxicity across the industry in order to enable the early prediction and mechanistic understanding of potential carcinogens in pre-clinical research.”
The Predictive Safety Testing Consortium (PSTC) was established by C-Path to bring together major pharmaceutical companies to work in collaboration with C-Path and in coordination with the FDA. Its objective is to enable the exchange of knowledge and resources to speed drug development and improve drug safety. The Consortium currently has 16 members. Scientists from the FDA and its European counterpart, the European Medicines Agency, as well as academic experts also participate as advisors.
Increasingly, researchers are using Applied Biosystems comprehensive line of RNA analysis tools based on gold-standard TaqMan chemistry for the development of potential biomarkers. For this project, Applied Biosystems is providing PSTC scientists with its TaqMan Gene Signature Arrays. PSTC scientists will use this collection of RNA expression assays to develop a biomarker panel for use in screening potential therapeutics for carcinogenic effects in pre-clinical samples.
“Biomarkers that allow early prediction of toxicity will enable pharmaceutical companies to make better compound selection decisions and facilitate the early initiation of risk assessment work that would otherwise delay bringing important medicines to market,” said Peter Dansky, president of Applied Biosystems’ functional analysis division. “We are committed to continue expanding our menu of TaqMan Arrays for applications requiring a robust and highly-sensitive detection system in an easy-to-use and standardized format, such as in high-throughput drug screening.”
The development of tools that improve drug toxicity screening involves the generation and analysis of vast amounts of molecular data. Asuragen is contributing crucial laboratory services, pharmacogenomic expertise, and bioinformatics capabilities for the Predictive Safety Testing Consortium project.
“For this important project, Asuragen is committed to working with the Critical Path Institute and Applied Biosystems to help improve the drug development process,” said Matt Winkler, Ph.D., CEO and CSO of Asuragen.
About the Critical Path Institute
The Critical Path Institute (C-Path) was established in 2005 as a publicly funded, nonprofit research and education institute to serve as “neutral ground” and “trusted third party” for collaborations between scientists and others from government, industry and academia. C-Path’s mission is to help implement the FDA’s Critical Path Initiative (released in March 2004) by developing faster, safer and smarter pathways to new medical products. C-Path has offices in Tucson, Ariz. and Rockville, Md. For more information, visit www.C-Path.org.
About Applied Biosystems Inc.
Applied Biosystems Inc. (formerly known as Applera Corporation) is a global leader in the development and marketing of instrument-based systems, consumables, software, and services for academic research, the life science industry and commercial markets. Driven by its employees’ belief in the power of science to improve the human condition, the company commercializes innovative technology solutions for DNA, RNA, protein and small molecule analysis. Customers across the disciplines of academic and clinical research, pharmaceutical research and manufacturing, forensic DNA analysis, and agricultural biotechnology use the company’s tools and services to accelerate scientific discovery, improve processes related to drug discovery and development, detect potentially pathogenic microorganisms, and identify individuals based on DNA sources. Applied Biosystems has a comprehensive service and field applications support team for a global installed base of high-performance genetic and protein analysis solutions. Applied Biosystems Inc. is headquartered in Norwalk, CT. On June 12, 2008, Applera Corporation and Invitrogen Corporation announced that their Boards of Directors had approved a definitive merger agreement under which Invitrogen will acquire all of the outstanding shares of Applied Biosystems stock. The merger is subject to customary closing conditions and is targeted to close in November 2008. Information about Applied Biosystems, including reports and other information filed by the company with the Securities and Exchange Commission, is available at http://www.appliedbiosystems.com. All information in this news release is as of the date of the release, and Applied Biosystems does not undertake any duty to update this information unless required by law.
About Asuragen, Inc.
Asuragen is a molecular biology service provider and fully integrated diagnostic reagent company focused on molecular oncology and the early detection of cancer, with emphasis on microRNA (miRNA). The Asuragen Pharmacogenomic Services Division provides comprehensive molecular services for DNA, mRNA, and miRNA empowering commercial and academic scientists to rapidly acquire a wide range of molecular data. Our services group possesses critical expertise in biomarker discovery, assay design and validation, clinical trial design, CLIA-based testing, project management, and analysis.
Asuragen also provides a high level of expertise in diagnostic assay development, a well developed business infrastructure, and an established cGMP manufacturing facility that allow it to span the spectrum of discovery, testing, production, and commercialization. Asuragen is dedicated to developing new technologies that will lead to cutting edge clinical products. Visit our website at www.asuragen.com
Applied Biosystems Forward Looking Statements
Certain statements in this press release are forward-looking. These may be identified by the use of forward-looking words or phrases such as “should,” “expect,” and “planned,” among others. These forward-looking statements are based on Applied Biosystems’ current expectations. The Private Securities Litigation Reform Act of 1995 provides a “safe harbor” for such forward-looking statements. In order to comply with the terms of the safe harbor, Applied Biosystems notes that a variety of factors could cause actual results and experience to differ materially from the anticipated results or other expectations expressed in such forward-looking statements. These factors include but are not limited to: (1) rapidly changing technology and dependence on the development and customer acceptance of new products; (2) sales dependent on customers’ spending policies; (3) other factors that might be described from time to time in Applied Biosystems’ filings with the Securities and Exchange Commission.
For Research Use Only. Not for use in diagnostic procedures. Practice of the patented 5′ Nuclease Process requires a license from Applied Biosystems. For further information on purchasing licenses contact the Director of Licensing, Applied Biosystems, 850 Lincoln Centre Drive, Foster City, California 94404, USA. The TaqMan(R) Array is covered by U.S. Patents Nos. 6,514,750 and 6,942,837. Micro Fluidic Card developed in collaboration with 3M Company.
(C)Copyright 2008. Applied Biosystems Inc. All rights reserved. Applied Biosystems, and AB (Design) are registered trademarks of Applied Biosystems Inc. or its subsidiaries in the U.S. and/or certain other countries. TaqMan is a registered trademark of Roche Molecular Systems, Inc. All other trademarks are trademarks of their respective owners.
SOURCE: Applied Biosystems Inc.

October 24, 2008

The German Cancer Research Center Investigates the Role of miRNAs in Carcinogenesis Using febit’s Geniom RT Analyzer

LEXINGTON, Mass. (USA), and HEIDELBERG, Germany, Oct. 20, 2008 - The German Cancer
Research Center, also known as DKFZ, in Heidelberg (Germany) chose febit´s newly
introduced Geniom® RT Analyzer to investigate the association of microRNAs (miRNAs)
and cancer.

miRNAs are small pieces of RNA with a maximum length of 23 nucleotides, which have
become an important focus of life-science research in the past couple of years.
Since they do not encode any proteins, they remained largely unappreciated for many
decades. Recently, however, scientists began to realize their crucial role in the
regulation of intracellular events such as differentiation or apoptosis of cells.
The number of miRNA being discovered is growing by the day.

DKFZ scientists therefore searched for a technology that would allow them to keep
pace with the rapidly evolving miRNA databases, continually incorporating the latest
information into their research on the role of miRNAs in carcinogenesis. The newly
developed Geniom RT Analyzer ideally meets this requirement: it exploits freely
configurable biochips produced on demand at febit for microarray analysis of miRNA
profiles in biological samples.

“Our positive experience with the flexibility of febit´s Geniom contributed to our
decision to use the new Geniom RT Analyzer,” said Joerg Hoheisel, director of the
DKFZ Functional Genome Analysis Division. “Preliminary tests indicate an excellent
quality of microarray analysis. In addition, my team is enthusiastic about the
straight-forward operation and outstanding efficiency of the instrument.”

In addition to flexibility, the Geniom RT Analyzer offers a high degree of
automation and nume­rous user-friendly features: all steps in the workflow,
including sample addition, hybridization, staining, washing, shaking and detection,
are performed in one single instrument requiring a minimum of operator time. The
efficient operation results with minimal error rates and offer consistent
experimental parameters providing highly reproducible results. Data read out by the
Geniom Wizard software may then be analyzed with standard software solutions.

In addition to miRNA analysis, the Geniom RT Analyzer offers a variety of other
high-performance applications. For example, a patented biochip protocol enables the
fragmen­tation and sorting of large genomes in smaller well-defined fractions.
Without this essential fractionation step, the complexity of the genomic DNA would
preclude any effective analysis. These may then serve as samples in mutation
analysis and high-throughput sequencing with next-generation sequencers.

febit’s new Geniom RT Analyzer combines extraordinary flexibility with a high degree
of automation for microarray analysis. (Photo: febit)

About febit

febit enables scientists to read, write and understand the code of life: DNA. With
its unique Geniom technology and services, febit is the only company that puts the
control of simplified genomic research in the hand of the user. The seamless
integration of DNA synthesis and analysis and the superior support in experiment
design and bioinformatics helps to understand data and turn it into results. febit’s
team of experienced scientists is dedicated to support customers to solve the
challenge of understanding biological processes. Geniom is a technological and
service platform successfully implemented in basic and applied research by renowned
institutions and companies. Geniom exploits cutting-edge microarray technology for
analysis and synthesis of genes and genomes, providing superior time- and
cost-efficiency combined with an unsurpassed spectrum of applications.

For more information about febit and its products please visit

www.febit.com

About the DKFZ, Division of Functional Genome Analysis

Research at the division of Functional Genome Analysis at the DKFZ (German Cancer
Research Center) aims at the development and immediate application of new
technologies for the production and processing of molecular information at a global
cellular level. The overall objectives are an analysis, assessment and description
of the realisation of cellular function from genetic information as well as the
understanding of the regulation of the relevant processes. Many projects are pursued
in national and international collaborations and programmes.

For more information on Functional Genome Analysis at the DKFZ, please visit
www.dkfz.de/funct_genome/

October 22, 2008

Cell-Based Assays: Innovations in Reagents, Technologies & Screening October 23 - 24, 2008

Cell-based assays provide one of the most valuable tools in drug discovery.  They are routinely used in target validation, HTS campaigns, structure activity relationship analyses and ADMET studies. Many factors need to be considered in designing, developing and running relevant cell based assays to progress discovery programs.  Significant advances continue to be made in assay design and cell supply processes that incorporate biologically relevant cell types and novel detection technologies. This symposium is designed to capture successful techniques and practices that enable high quality cell-based assays using commonly employed cell types such as CHO, HEK and U-2 OS, as well as the expanding application of additional cell types. The symposium will be of great interest to cell culture scientists, assay developers, screeners, medicinal chemists, ADMET and therapeutic teams.

Session Overviews:

Session 1: Cells as Reagents - Fact or Fiction?
This session will cover various aspects of the most important material used in cell-based assays: the cells. The talks will address the topics such as: how to characterize cell lines to ensure their identity? What are the impacts to the cells after transfection? What are the issues during scale up process? This session will also highlight advances in cell culture automation and material tracking system for cell-based assays.

Session 2: Assay Development - Present Realities
Topics covered include the application of BacMam virus based gene delivery in assay development, the development of high-content cellular assays, dielectric spectroscopy technology and photoprotein aqueorin based GPCR assay platforms and considerations in screening for antibody based therapeutics.

Session 3: Cell-Based Screening - The How, Why & Where
This session will include topics on the implementation of cell-based assays and screens across the discovery process focusing on the challenges, solutions and issues to consider. Presentations include experiences with high throughput screening for lead identification, profiling with cellular panels, ADME applications, and the use of high content screening in both drug discovery and to probe complex cellular systems.

Session 4: Cell-Based Assays - Emerging Trends
The topics in this session will address emerging trends in supply of cells that attempts to bridge the gap between traditional target based in vitro assays and in vivo measurements. The presentations will highlight potential applications of cells to build model systems that can offer the combined benefits of traditional in vitro and ex vivo approaches. These emerging technologies and methodologies hold the promise of addressing a major gap in using target based approaches to discover new biological tools and drugs and will challenge the supply of cell reagents.

http://www.sbsonline.com/

October 2, 2008

CLC bio Partners with Illumina to Provide Next Generation Sequencing Analysis Technology

Aarhus, Denmark — October 2, 2008 — Following an overwhelming reception of CLC Genomics Workbench 1.0, CLC bio is happy to announce the release of its next major version of their flagship product: CLC Genomics Workbench 2.0. Additionally, CLC bio has taken another important step in leading next generation sequencing data analysis by  becoming an Illumina Connect partner. Illumina Connect is a bioinformatics software partnership program established by Illumina, Inc. to advance data integration and analysis.

“CLC Genomics Workbench 2.0 provides scientists using Illumina’s Genome Analyzer with advanced downstream analysis,” says Jordan Stockton, Marketing Manager for Computational Biology at Illumina.  “Not only is it fast, but the new version of CLC Genomics Workbench offers alignment and assembly functionality that previously required larger investments in computer hardware. With its intuitive graphical interface, this application provides a simple desktop solution to biologists who might otherwise require the assistance of a dedicated bioinformatics professional.”

As an Illumina Connect partner, CLC bio has access to information in the ongoing development of Next Generation Sequencing tools, ensuring that CLC bio’s solutions will be able to fully support Illumina’s tools, including new releases.

Director of Scientific Software Solutions at CLC bio, Dr. Roald Forsberg states, “This release is inspired by the great advances in human genetics that are being powered by Next Generation Sequencing technologies, like Illumina. Large scale projects like the Cancer Genome Project and the 1000 Genomes Project are creating a vast amount of data that will transform biomedical research. However, before the revolution in human genetics can be fully realized by the research community there is a dramatic need for bioinformatics solutions that will allow biomedical researchers to handle and analyze sequencing projects at the human genomics scale - something we aim to solve with this and upcoming releases.”

CLC Genomics Workbench 2.0 will include several prominent new features, among these:

A new and extremely fast algorithm for the assembly of short reads

Lowering of the memory requirements that makes it feasible to perform reference assembly against all human chromosomes on a standard computer

Easy 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

Easy combination of data across platforms and experimental protocols so that e.g. single read and paired ends data are easily combined into one analysis
CLC Genomics Workbench is the first and only comprehensive analysis package which can analyze and visualize data from all major NGS platforms, such as Illumina’s Genome Analyzer, SOLiD by Applied Biosystems, 454 GS flx by Roche, and HeliScope by Helicos. CLC Genomics Workbench is platform independent, running on Mac OS X, Windows, and Linux - including 64bit versions.

To read more about CLC Genomics Workbench go to: www.clcbio.com/genomics
About CLC bio
CLC bio is a world leading bioinformatics solution provider, solely focusing on the development of bioinformatics: software, hardware, data analysis, and custom-designed bioinformatics algorithms.

CLC bio’s mission is to be among the most innovative bioinformatics companies in the 21st century. This is realized through:

Focusing on Next Generation Sequencing downstream data analysis
Development of bioinformatics software and hardware based on the latest scientific findings
User-friendly, integrated and intuitive cross-platform software solutions
Continuous focus on customer needs and superior customer service
Frequent product updates including the latest IT technologies and bioinformatics algorithms
A flexible IT architecture, enabling customers to buy or develop individualized solutions at a reasonable price

September 9, 2008

First of 100 Arab Human Genomes Sequenced by Saudi Biosciences, Beijing Genomics Institute Shenzhen, and CLC bio

Riyadh, Kingdom of Saudi Arabia — September 9, 2008 — An international consortium consisting of Saudi Biosciences, Beijing Genomics Institute Shenzhen, and CLC bio have in a joint effort performed an initial sequencing and analysis of the first Arab human genome, as part of a large project to sequence 100 Arab human genomes to map the unique genetic variations of the Arab population.

His Royal Highness Prince Ahmad bin Sultan bin Abdulaziz, Head of the Board of Directors at Saudi Biosciences, said “This marks the first milestone in our goal to pioneer the personalized medicine era in the Arab world, and the next step is to lead a large project to sequence 100 Arab genomes at high resolution no later than the end of 2010. Our ambitions are to make this project go beyond similar international efforts, both in terms of quality and quantity!”

Dr. Saeed Hussain from Saudi Bio Sciences, states, “We are extremely proud to present the first Arab human genome! This project launches the Kingdom of Saudi Arabia in to the small circle of nations who are currently in the process of building sophisticated databases of human genetic variation. This database is fundamental in the process of analyzing and understanding the specific genetic makeup of Arabs, which in turn will provide key knowledge to improve medical care for this large group of people.”

How was the project realized?
After Saudi Biosciences launched this project early 2008, an international joint collaboration with  Beijing Genomics Institute and CLC bio was organized.  A high quality sequencing of this genome was generated using Illumina’s Genome Analyzer platform. Afterwards the data was assembled and analyzed using CLC bio’s CLC Genomics Workbench.

“The fact that Saudi Biosciences have selected CLC bio among all the potential software providers, emphasizes that we are the world’s leading provider of genomics software solutions. We could think of no better opportunity to refine our software solutions, than a project like this, which is truly at the forefront of genomics research. This is indeed a unique and visionary project that we are excited and proud to be a part of.” said the Director of Scientific Solutions at CLC bio, Dr. Roald Forsberg.

The results, including analysis and identification of the unique variants of the Arab genome compared to African, European and Asian genomes, have been accumulated. The data are currently confidential but will be released following publication.

What is the impact of this project?
One of the most important goals of modern medicine and genetic research is the goal of tailoring medical care to an individual’s needs, based on information from the individual’s genotype or gene expression profile, so-called personalized medicine. Personalized medicine can offer huge advances in medical care but can only succeed if the genetic variation of humans can be accurately mapped.

The advent of a new generation of experimental techniques, has now given biomedical researchers the opportunity to map the complete genetic variation of large numbers of humans via full genome sequencing. The data produced from such efforts will provide an unparalleled amount of information that can be used to distinguish the unique groups within the human race, and help tailor medical care that targets the specific needs of different populations and individuals. Personalized medicine is thus on the brink of a major breakthrough.

However, the projects scheduled so far have aimed at characterizing mainly three populations - Africans, Europeans and Asians. This means that an accurate characterization and discovery of genetic variation in the Arab people can not be immediately expected and that the Arab populations may receive less of the benefits that will follow the advancement of personalized medicine.

This is why the Kingdom of Saudi Arabia wanted to start building an Arab human genomics database now, in order to scientifically explore the unique genetic composition in the Arab world. The database is fundamental in the process of analyzing and recognizing the distinct genetic makeup of Arabs, which in turn can provide knowledge to help stratify disease status, select between different medications and tailor their dosage, provide a specific therapy for an individual’s disease, or initiate a preventative measure that is particularly suited to that patient at the time of administration.

His Royal Highness Prince Ahmad bin Sultan bin Abdulaziz, Head of the Board of Directors at Saudi Biosciences, said “The Arab world was never an active participant in the large international projects in the field of genomics, and we believe that this should change. Working with an international collaborator such as Beijing Genomics Institute, an advanced institute in genomics studies, and CLC bio, the leaders in bioinformatics solutions with their recently released CLC Genomics workbench, we plan to participate actively in international efforts towards understanding the genomics basis of human diseases.”


About Saudi Biosciences

Saudi Biosciences (SB) is a leading biotechnology company in the Middle East. SB main goal is to  implement personalized medicine concept through studying the variations in Arabic populations. To achieve this goal, SB is sequencing 100 Arab genomes, exploring copy-number variations (CNV) and performing genome-wide association studies (GWAS) in collaboration with major institutes in Middle East.

About the Beijing Genomics Institute Shenzhen

The Beijing Genomics Institute Shenzhen (BGI) was founded in 1999. Since June of 2007, BGI has been headquartered in Shenzhen. It achieved international prominence as a center for sequencing the human genome. BGI completed one percent of the human genome for the Human Genome Project and ten percent of HapMap. Today the BGI staff of 500, led by Director Yang Huanming and Director Wang Jian, are in the forefront of genome research. Among other achievements, BGI has sequenced and mapped the rice and silk worm genomes. Current research includes sequencing of the panda genome as well as participation in the International HapMap project and the 1000 Genomes project.

About CLC bio

CLC bio is a world leading bioinformatics solution provider, solely focusing on the development of bioinformatics: software, hardware, data analysis, and custom-designed bioinformatics algorithms.

CLC bio’s mission is to be among the most innovative bioinformatics companies in the 21st century. This is realized through:

  • Focusing on Next Generation Sequencing downstream data analysis
  • Development of bioinformatics software and hardware based on the latest scientific findings
  • User-friendly, integrated and intuitive cross-platform software solutions
  • Continuous focus on customer needs and superior customer service
  • Frequent product updates including the latest IT technologies and bioinformatics algorithms
  • A flexible IT architecture, enabling customers to buy or develop individualized solutions at a reasonable price

July 28, 2008

CLC bio release white paper on the world’s fastest Next Generation Sequencing assembly algorithm

Aarhus Denmark — July 23, 2008 — CLC bio has just released a scientific white paper which confirms, that, in benchmarking tests, CLC bio’s new algorithm for assembly of Next Generation Sequencing data is the fastest one available. Not only is CLC bio’s algorithm considerably faster, but it also provides a better quality of the results, compared to other algorithms benchmarked in the white paper.

Assistant Professor at Rutgers University, Dr. Todd P. Michael, states, ‘The speed of CLC bio’s new algorithm for reference assembly of Next Generation Sequencing data raises the bar to a level currently unmatched by any competitor. When CLC bio continues this impressive rate of development, and eventually also handles SOLiD’s Color Space analysis in the same convincing manner, this could easily become a de facto tool for scientists working with Next Generation Sequencing analysis.’

Instead of using around 3 to 4 hours assembling 8.5 million reads against a whole human genome, CLC bio’s assembly algorithm accomplished the same calculation in little more than half an hour, which means at least 5 times faster than the closest competitor.

For the assembly of large data sets, the increase in speed is even bigger: When assembling 86 million reads against the whole human genome, CLC bio’s assembly algorithm is more than 14 times faster, meaning an assembly normally taking almost 40 hours can be done in less than two! At the same time, CLC bio’s algorithm provides a better quality of the results delivered with more than 85% accuracy, compared to around 83% for the other algorithms in the white paper.

Another highly interesting aspect of this improved assembly algorithm is the modest requirements of physical memory - at no point during the benchmark tests did CLC bio’s algorithm require more than 8GB RAM.

The benchmark tests were conducted by comparing both 8.5 million reads and 86 million reads against a whole human genome, kindly supplied by the Beijing Genomics Institute. The data set for the benchmark tests was sequenced on Illumina’s Solexa platform and each read had a length of 35 nucleotides.

Once the assembly algorithm will be released in August, it will be available both in a command-line version on CLC bio’s Bioinformatics Cell platform and through CLC Genomics Workbench, which offers an intuitive graphical interface for analyzing and visualizing Next Generation Sequencing data. CLC bio’s white paper is free to download for everyone at www.clccell.com/ngs

About CLC bio

CLC bio is the world’s leading full-service bioinformatics solution provider, solely focusing on the development of bioinformatics: software, hardware, data analysis, and custom-designed bioinformatics algorithms.

CLC bio’s mission is to be among the most innovative bioinformatics companies in the 21st century. This is realized through:

  • Development of bioinformatics software and hardware based on the latest scientific findings
  • User-friendly, integrated and intuitive cross-platform software solutions
  • Continuous focus on customer needs and superior customer service
  • Frequent product updates including the latest IT technologies and bioinformatics algorithms
  • A flexible IT architecture, enabling customers to buy or develop individualized solutions at a reasonable price

AgriGenomics World Congress 2008 29-30 September 2008, Amsterdam, The Netherlands

Select Biosciences is proud to announce their inaugural AgriGenomics World Congress. This year’s event will take place at the NH Grand Hotel Krasnapolsky in Amsterdam.

AgriGenomics.eu

Alongside an exhibition of selected scientific posters and service providers, Select Biosciences is organizing a two day event gathering some of the most influential players in the field from Europe, America and across the globe.

The agenda will include world leading research from renowned speakers including:

  • Karen Century
    Senior Scientist, Mendel Biotechnology
  • Jim Dunwell
    Professor, University of Reading
  • Dominique Job
    Laboratory Head, Bayer CropScience and CNRS
  • Johnathan Napier
    Research Leader, Rothamsted Research
  • Andrew Paterson
    Distinguished Research Professor and Director of the Plant Genome Mapping Laboratory, University of Georgia
  • Joseph Petolino
    Senior Scientist, Dow AgroSciences
  • Tatiana Tatusova
    Genome Group Coordinator, National Centre for Biotechnology Information, National Institutes of Health
  • And many more…

The full two day agenda includes the following sessions:

  • Metabolic Engineering
  • System-Based Approaches
  • Informatics
  • Traits & Applications

To guarantee a high attendance at this exciting event Select Biosciences will maintain their traditional low registration fees and group booking discounts.

Full conference passes include admission to all sessions and the exhibition as well as conference documentation.

Lunch, coffee breaks and the drinks reception provide ample time for networking and to continue discussions from the question and answer sessions.

The conferences division of Select Biosciences Ltd. is focused on organizing specialist biomedical meetings each year. Experts from both academia and commerce are invited to present timely information from current research through to commercial implementation of new technologies. These events also provide a unique networking facility and the opportunity to reach a highly targeted scientific audience.
www.selectbiosciences.com

July 18, 2008

CLC Genomics Workbench - CLC bio releases Next Generation Sequencing data analysis solution

Aarhus, Denmark — June 12, 2008 — Today, CLC bio released their new Next Generation Sequencing (NGS) solution, CLC Genomics Workbench, which incorporates cutting-edge technology and algorithms, while also supporting and integrating with the rest of a typical NGS workflow.

CLC Genomics Workbench is the first comprehensive analysis package which can analyze and visualize data from all the major NGS platforms, such as SOLiD by Applied Biosystems, 454 GS flx by Roche Applied Science, Solexa by Illumina, and HeliScope by Helicos.

Director of Scientific Solutions at CLC bio, Dr. Roald Forsberg, PhD, states, “We set out to overcome two major challenges when analyzing Next Generation Sequencing data. One was to eliminate the analysis bottleneck by being able to analyze NGS data faster than it is produced. We overcame that by implementing an accelerated assembly algorithm in CLC Genomics Workbench which preliminary benchmark tests confirm is a very fast assembly algorithm. Secondly, we wanted to deliver user-friendly software which makes powerful NGS analysis software available to all biomedical researchers.

In benchmark tests, CLC bio has assembled half a million 454 reads against the full E.coli reference genome in around 2 minutes on a dual-core computer with 1 gigabyte RAM. This speed-up, based on integrated SIMD high-performance computing technology, increases even more when using a computer with more CPU-cores and RAM. CLC bio expects to release a benchmark white paper in the near future.

CLC Genomics Workbench 1.0 takes full advantage of “paired end” data, and supports a number of features and work-tasks, such as reference assembly of genomes, de novo assembly of genomes, SNP detection using advanced models, multiplexing, and high-throughput trimming.

Having completed the first version of CLC Genomics Workbench, CLC bio is already pursuing an ambitious development roadmap, which will enhance future softwares with features such as Digital Gene Expression, metagenomics, clustering and assembly of EST and cDNA sequences, large amounts of genomics and transcriptomics downstream analyses, and workflow support.

CLC Genomics Workbench has already been chosen as Next Generation Sequencing platform for all Danish universities. To read more about CLC Genomics Workbench go to: www.clcbio.com/genomics

About CLC bio

CLC bio is the world’s leading full-service bioinformatics solution provider, solely focusing on the development of bioinformatics: software, hardware, data analysis, and custom-designed bioinformatics algorithms.

CLC bio’s mission is to be among the most innovative bioinformatics companies in the 21st century. This is realized through:

  • Development of bioinformatics software and hardware based on the latest scientific findings
  • User-friendly, integrated and intuitive cross-platform software solutions
  • Continuous focus on customer needs and superior customer service
  • Frequent product updates including the latest IT technologies and bioinformatics algorithms
  • A flexible IT architecture, enabling customers to buy or develop individualized solutions at a reasonable price
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