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November 21, 2008
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Best of Show: Life Science Software & Informatics


June 13, 2007

Pathways Analysis
WinnerIPA 5.0, a software application from Ingenuity, enables three pivotal capabilities: biomarker analysis, molecular toxicology analysis, and interactive signaling and metabolic pathways. IPA-Biomarker allows researchers to rapidly identify and prioritize the most biologically relevant and plausible biomarker candidates in a genomic or proteomic dataset, based on contextual information connecting those biomarkers mechanistically to disease, and identifying those detected in bodily fluids. With the newly added toxicology content and Toxicology Analysis workflow, even non-experts can rapidly assess whether their candidate compound is associated with a particular toxicological profile and understand the underlying mechanism of toxicity. Finally, the Interactive Signaling and Metabolic Pathways solution lets researchers extend beyond boundaries of the classical, well-characterized signaling and metabolic pathways.
Product: IPA 5.0
Company: Ingenuity
Available: Now
For More Information: www.ingenuity.com

Natural Search
Linguamatics I2E technology combines natural language processing (NLP), intuitive reporting, a search engine approach, and the ability to plug in domain knowledge such as ontologies, taxonomies, and thesauri to enable users to rapidly extract relevant facts and relationships from large document collections, including internal research reports, journal articles, abstract databases such as Medline, patents, and newsfeeds. Linguamatics’ flexible, real-time NLP enables rapid development and execution of queries using a highly intuitive user interface to get straight to relevant answers.
Product: 12E v 2.9
Company: Linguamatics
Available: Now
For More Information: www.linguamatics.com

Fast & Easy Typing
CLC MLST Module is a plug-in to the CLC Combined Workbench and CLC Gene Workbench. The module is designed to make it easy and fast to handle data when doing multi-locus sequence typing (MLST), a method used for typing bacterial isolates. It uses 6-11 housekeeping genes which makes the method amenable to automatic sequencing machines. MLST is a fast and unambiguous way of typing bacteria. The CLC MLST Module is integrated with online public databases for MLST schemes and compares the new isolate with already existing sequence types.
Product: MLST Module v 1.0
Company: CLC Bio
Available: June
For More Information: www.clcbio.com

Content-Based Support
MarkLogic Server 3.1 is the latest version of the company’s leading XML content server, a platform that provides a set of services used to build applications and support business processes based on content. MarkLogic Server lets customers load, query, manipulate and render content to unlock its full value. Version 3.1 includes more powerful search functionality, innovative XML classifier allowing businesses to classify a document based not just on its text but also by understanding its XML structure, point-in-time queries, XML lexicons, and search performance enhancements.
Product: MarkLogic Server 3.1
Company: MarkLogic
Available: Now
For More Information: www.marklogic.com

Build Literature Reports
ActiveMotif’s AKS2 is a knowledge management software system that analyzes and organizes biochemical and biomedical literature. AKS2 extracts key biological or biomedical concepts from the abstracts, analyzes all the relationships between the concepts, and presents the results in an easy to understand summary report. AKS2 can be applied to disease-based research to aid in the finding of related drugs, genes, etc. in published abstracts, and can enable researchers to explore and discover relationships in the literature that are not easily uncovered with traditional information retrieval approaches.
Product: AKS2
Company: ActiveMotif
Available: Now
For More Information: www.activemotif.com

Patent & Sequence Search
GenomeQuest 4.0 is a web application for sequence search analysts in biotech law and research. It is composed of three functional elements integrated under a browser-based interface: data content, consisting of approximately 127 million DNA sequences and associated annotations, and more than 49 million DNA sequences with associated patent documentation; a suite of search strategies; and a query result viewing and filtering capability. GenomeQuest has a published API, and complies with Web 2.0 standards. (See Bio•IT World, Nov. 2006.)
Product: GenomeQuest 4.0
Company: GenomeQuest
Available: Now
For More Information: www.genomequest.com

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White Papers & Special Reports

Waters white paper image
Software Helps Doping Control Lab Streamline Results Management
Sponsored by Waters
The Karolinska University Hospital’s Doping Control Lab tests thousands of samples annually for stimulants, diuretics, and other masking agents. Increased regulatory pressure and new technologies increased the number of samples analyzed creating data management challenges. Waters® NuGenesis® Scientific Data Management System and TargetLynx™ Application Manager software were used to reduce the time required to calculate, review and search results.
Download the case study.


sas whitepaper92
Managed Innovation, Assured Compliance
Sponsored by SAS
Discovery organizations are identifying a lot of promising compounds, but clinical research processes haven't kept pace with timely testing of all those potential therapies. This white paper describes how SAS® Drug Development supports true innovation across the clinical trial process.

In this white paper you will learn how to:

  • Assemble data to foster better collaboration
  • Get up-to-date information during clinical trials
  • Make informed decisions earlier in the trial process
Download now


BlueArc white paper image
Addressing Life Sciences Constantly Growing Data Challenges Research Environments
Sponsored by BlueArc
The continued explosion of raw experimental data, the increased use of video, the growing adoption of new data retention practices, and the move to high throughput computational workflows are all placing new demands on the way life sciences organizations store and manage their data.

Download this white paper to learn about:

  • Factors driving the data explosion in the life sciences
  • New data management issues that must be addressed
  • HPC trends that are placing new demands on storage
  • Storage solution attributes that address performance, manageability, and energy efficiency.
Download now
More White Papers & Special Reports
Life Science Webcasts & Podcasts

Medidata Solutions

Rising Clinical Trial Delays and Costs - Addressing the Cause, Not the Symptoms 

medidata podcastProtocol complexity is taking a toll on clinical study speed and efficiency: increasingly complicated and ambitious protocols are not only burdening sites and study volunteers but are also prolonging trials and increasing expenses. In response, sponsors have turned to global study placement, restructured site relationships and new site management practices, but the problem remains.

This podcast will discuss:

  • Why these responses address only the symptoms, not the underlying cause, of rising clinical trial delays and costs.
  • Results of a recent joint Tufts University / Medidata Solutions study.
  • New metrics benchmarking protocol design trends.
  • Systematic protocol design improvements and why they are essential to clinical trial performance excellence.

Speakers: Ken Getz, Senior Research Fellow at the Tufts Center for the Study of Drug Development, and Ed Seguine, General Manager, Trial Planning Solutions at Medidata.

Download Now 

More Podcasts

Job Openings

Director, Center For Information Technology (CIT) - National Institutes of Health  (NIH), Department of Health and Human Service
Located in Bethesda, MD. This position requires:
• High-level vision, leadership, management, and modernization of CIT programs and services.
• Strategic direction and policy development for CIT long-term operations and objectives.
• Serve as a key IT advisor to the NIH Chief Information Officer.
A TOP SECRET security clearance will be required.  More job detail is found at:  http://www.jobs.nih.gov under the Executive Jobs section.Or contact Ms.Winnie Garner at seniorre@od.nih.gov.  Applications must be received ELECTRONICALLY by (11:59 p.m.), December 17, 2008.  DHHS and NIH are Equal Opportunity Employers

Bioinformatics Manager- Lilly Singapore Centre for Drug Discovery
For more information click here 

Related Resources & Products

Adopting Integrated R&D Informatics Systems
Adopting Integrated R&D Informatics Systems
Breathing New Life into Structure-Based Design
Advanced Good Clinical Practice: Practical Application and Implementation

For reprints and/or copyright permission, please contact The YGS Group, 1808 Colonial Village Lane, Lancaster, PA;

(717) 399-1900 ext. 125, or via email to Ashley.Zander@theYGSgroup.com.

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