Category Cross-Omics>Pathway Analysis/Gene Regulatory Networks/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 -

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;

6) Over two (2) million resolved synonyms for genes, proteins and compounds;

7) Custom network editing for all functions - gene expression, pathway analysis, etc;

8) 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 Abstract Number 20088), GeneSpring (see G6G Abstract Number 20003R) and (see G6G Abstract Number 20056R); Spotfire’s Decision Site; ArrayTrack (see G6G Abstract Number 20089); Genedata Expressionist (see G6G Abstract Number 20057R) and Genedata Analyst (see G6G Abstract Number 20059R); Phylosopher products; Inforsense’s KDE (see G6G Abstract Number 20033) and (see G6G Abstract Number 20034); SciTegic’s Pipeline Pilot (see G6G Abstract Number 20063) and (see G6G Abstract Number 20069); and 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):

Server (for in house installations):


Manufacturer Web Site GeneGo, Inc.

Price Contact manufacturer.

G6G Abstract Number 20024

G6G Manufacturer Number 101109