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    GenePort 5.0

    Category  Cross-Omics>Data/Text Mining Systems/Tools

    Abstract  The GenePort system is a web browser-based data mining
    and management system that combines an advanced, portal-driven
    backbone with sophisticated and user-friendly knowledge discovery
    tools. The system manages and correlates data types including
    sequences, annotations, expression data, and literature, and presents
    the information in a clear and intuitive style allowing users to efficiently
    navigate and mine their data.

    It provides researchers with an effective framework for turning raw data
    into discovery, and can be extended to include additional tools, data
    types and data sources.

    Products New features in 5.0 include --

    1) 100% Java - GenePort has been ported to the Java platform. This
    provides a number of benefits such as much greater speed, easier
    installation, and an increased number of supported server platforms.

    2) VIBE Algorithm Server Usage - GenePort 5.0 now includes a VIBE
    Server license free-of-charge. The VIBE server is used to execute all
    long-running algorithms and is capable of utilizing the Sun Grid Engine
    (SGE) for performance boosts in cluster environments.

    3) New Data Types - The manufacturer has added KEGG and Gene
    Ontology (GO) support to GenePort 5 and they are working on a brand-
    new Mass Spectrometry (MS) toolkit. Manufacturer has also added
    support for the MySQL 4.1.

    4) Improved Metadata - Metadata is what makes GenePort work. For 5.0,
    the manufacturer has completely re-written the metadata system from
    the ground-up making it even easier to add new data types and
    algorithms to the system.

    Products Data features include --

    1) Wide Data Type Support - GenePort 5.0 supports microarray and
    sequence data. GenePort also seamlessly accesses PubMed, KEGG,
    and GO to download related data. All related algorithm results are
    handled internally by GenePort, thereby minimizing the effort of
    managing many heterogeneous algorithms and results manually. And
    because GenePort was designed with an eye toward the future of
    bioinformatics, its meta-data-driven engine allows new data types to be
    quickly integrated (such as this manufacturer's upcoming Mass Spec
    toolkit).

    2) Data Permissions - The data permissions system ensures that No
    one can alter or remove data that's Not allowed to.

    3) Simplified Data Management - GenePort provides web-based
    interfaces for importing data with automated execution of commonly
    used algorithms in the background. The system also exports data to
    INCOGEN's VIBE pipeline system.

    Products Ease-of-Use features include --

    1) Intuitive Portal Design - The portal interface provides an intuitive view
    of all data, with built-in data cross-referencing to automatically display
    related data items.

    2) Effective Querying - Finding the most valuable data is greatly
    simplified with web-based forms that can build simple or complex
    criteria for data retrieval.

    3) Customizable Views - Intelligent defaults and user-configurable
    views minimize the amount of unrelated data displayed. Users decide
    which data is shown on each page in GenePort and how they want to
    see it.

    4) Helpful Search Agents - Virtual "Search Agents" use e-mail or digital
    cell phone paging to automatically notify researchers of interesting
    information as it becomes available.

    Products Administrative features include --

    1) Extensible Architecture - A state-of-the-art architecture allows
    GenePort to be extended to include new algorithms and data types with
    minimal coding. INCOGEN developers can provide a variety of
    additional unique features through the Professional Services division
    as well.

    2) Flexible Resource Management - GenePort utilizes INCOGEN's VIBE
    (VIBE Server license included with GenePort purchase) to distribute
    computationally intensive algorithms to remote servers or clusters. This
    allows the system administrator greater resource management
    flexibility.

    3) Cross-Platform Software - The GenePort system is portable, allowing
    it to be installed on a variety of operating systems. And since the client-
    side is accessed via a standard web browser, users can work from
    their favorite workstation. Your personalized GenePort installation can
    also be hosted by INCOGEN's Professional Services division to
    eliminate your system administration costs.

    4) Secure Access - GenePort can be accessed over Secure Sockets
    Layer (SSL) connections to ensure confidential access to your data,
    whether in-house or on the road.

    System Requirements  

    Workstation: 900 MHz CPU, 256 MB RAM, 30 MB available disk space
    Browsers: IE 6 or higher, Firefox 1.0.6 or higher, Safari
    Server (VIBE Server portion has separate requirements):
    900 MHz CPU, 512 MB RAM, 2 GB available disk space
    Platforms: Linux, Solaris, OS X, Windows 2000+
    Database (one of): MySQL 4.1+ or Oracle 8i+

    Manufacturer   Home office; see web site for international locations.

    INCOGEN, Inc.
    3000 Easter Circle
    Williamsburg, VA 23188
    Phone: 1-757-221-0550 or 1-800-286-6599
    Fax: 1-757-221-0117
    Email: info@incogen.com
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