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    MetaCore

    Category  Cross-Omics>Pathway Analysis/Tools

    Abstract  MetaCore is an integrated software suite for pathways and
    networks analysis of OMICs data. The scope of data types includes
    microarray and SAGE gene expression, Single Nucleotide
    Polymorphisms (SNPs) and Comparative Genomic Hybridization
    (CGH) arrays, Massively Parallel Signature Sequencing (MPSS),
    microRNA, proteomics, metabolomics, pathway analysis, Yeast-two-
    Hybrid (Y2H) and other custom interactions. Product is based on a
    proprietary manually curated database of human protein-protein,
    protein-DNA and protein compound interactions, metabolic and
    signaling pathways and the effects of bioactive molecules in gene
    expression. The database is supported by an advanced toolkit for data
    visualization, analysis and exchange, automated comparison of
    multiple experiments, and a variety of networking algorithms and
    options. MetaCore is available in two (2) business models -

    1) Web portal access - Named or concurrent licenses that provide
    access to the company’s secure server using the Internet protected by
    Verisign; 2) Enterprise solution - Installation of MetaCore behind the
    customer’s firewall. MetaCore becomes part of the intranet network
    and can be used as an internal informatics system. In house
    installations give customers hierarchical access to accounts, group
    sharing, and behind-the-firewall data exchange security. Note: Annual
    or multi-year licenses are available.

    Product capabilities/features include:

    Data analysis tools -

    1) Multiple ways to generate networks - a) Ten (10) network-generating
    algorithms; b) Specificity filters for tissues, functional processes, sub-
    cellular localization, interaction mechanisms, species etc; 2)
    Enrichment analysis in multiple ontology’s - GeneGo annotated
    processes, canonical pathways, Gene Ontology (GO) processes and
    human diseases; 3) Statistical tests and scoring for network relevance
    to the dataset, functional processes, cellular pathways and
    transcription factors; 4) Multiple types of P-value calculations for
    enrichment analysis and network prioritization; 5) Multiple logical
    operations on networks and gene lists; 5) Over two (2) million resolved
    synonyms for genes, proteins and compounds;  6) Custom network
    editing for all functions - gene expression, pathway analysis, etc; 7)
    Query for genes, proteins, compounds, reactions, pathways, drugs
    and diseases.

    Curated content -

    1) Unique manually curated database of human protein-protein,
    protein-DNA, Protein-RNA and protein-compounds interactions such
    as gene expression; 2) Human endogenous metabolism: enzyme-
    encoding genes, reactions and metabolites; 3) Three (3) domains of
    human interactions - target-ligand, signaling and signal transduction
    and core metabolism; 4) Over 500 original canonical pathway analysis
    maps for signaling and metabolism; 5) Proprietary GeneGo ontology
    for cellular and molecular processes and human diseases; 6) Pre-
    built process and disease networks.

    Integration, visualization and management of experimental data from
    pathway analysis to gene expression and beyond -

    1) Universal parser for molecular data - Affymetrix, Agilent, Illumina,
    Applied Microarrays, SNP arrays, siRNA and proteomics; 2) Unique
    parsers for metabolomics data and custom protein-protein
    interactions; 3) Interconnectivity and cross-referencing with P-values
    between maps, networks and functional processes; 4) Drug targets
    and associated drugs; 5) Disease genetic data and disease networks;
    6) Seamless integration and file exchange with Resolver (see G6G
    Product Number 20088), GeneSpring (see G6G Product Number
    20003) and (see G6G Product Number 20056), Spotfire’s Decision
    Site (see G6G Product Number 20061), ArrayTrack (see G6G Product
    Number 20089), GeneData’s Expressionist (see G6G Product Number
    20055) and (see G6G Product Number 20057) and (see G6G Product
    Number 20059) and Phylosopher products, Inforsense’s KDE (see
    G6G Product Number 20033) and (see G6G Product Number 20034),
    SciTegic’s Pipeline Pilot (see G6G Product Number 20063) and (see
    G6G Product Number 20069), Xenobase and other data analysis
    packages including our customers internal software and databases;

    7) Instant mapping of multiple, heterogeneous experimental data sets
    onto functional maps and pathways; 8) Concurrent visualization of
    multiple data types on the same maps or networks; 9) Concurrent
    visualization of multiple experiments, time points and dosages through
    animated graphics; 10) Flexible switching between data sets and
    controls; 11) User controls -  colors scheme, value ranges, thresholds;
    12) Mapping human, rat, mouse, fly, worm, dog, chicken, chimpanzee
    and yeast orthologs on maps and networks; 13) Password-protected
    individual and group accounts; 14) Import/export, store networks,
    maps and gene lists in different formats; 15) Comprehensive reports
    produced from the compare experiments workflow.

    System design & access -

    1) Oracle database architecture; 2) Seamless compatibility with
    customer’s IT infrastructure; 3) Web-based access or “behind-the-
    firewall” internal server installation; 4) Named user or concurrent
    licenses.

    System Requirements  

    Client (for web portal and in house installations):

    Internet Explorer 6.0 or higher is required
    Macromedia Flash 8 or higher Plug-In is required
    P4/Centrino/Core Duo CPU and 512MB of RAM is recommended

    Server (for in house installations):

    2 or more P4/XEON or AMD Opteron CPU’s with 4GB or more of RAM
    recommended
    SCSI HDD with minimum of 36 GB of storage is recommended
    RedHat Enterprise Linux 3, 4; SuSE 9.2; CentOS 4.4
    Development and X development packages installed
    JDK 1.4.2 (except 1.4.2_03) or later
    Oracle 9.2.0.6 or 10.2 DBMS and client tools, including imp/exp utilities
    MetaCore now supports x86-64 architecture

    Manufacturer   Home office; see web site for international and other
    domestic locations.

    GeneGo, Inc.
    500 Renaissance Drive, #106
    St. Joseph, MI 49085
    Tel: (888)592-3124
    Tel:  (269) 983-7629       
    Fax: (269) 983-7654
    customersupport@genego.com
    sales@genego.com

    Manufacturer's Web Site  www.genego.com/metacore.php

    Price  Contact manufacturer

    G6G Product Number  20024

    G6G Manufacturer Number  101109
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