MetaCore: Data-Mining and Pathway Analyses - Thomson Reuters

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Nov 20, 2013 (4 years and 7 months ago)


• Pathway analysis of ‘omics’ data for drug discovery
• Knowledge mining of the database for
hypothesis generation
• Target and biomarker assessment and validation
• Disease pathway modeling and investigation
of causal mechanisms
• Patient stratification, comprehensive
comparison, and functional fingerprinting
• Biological researchers
• Discovery biologists
• Bioinformaticians
• Biomarker groups and pre-clinical researchers
• Heads of therapy area
• Principal investigators
• Translational researchers
DATA-Mining AnD PAThwAy AnAlysis
MetaCore™ from GeneGo, a Thomson Reuters business,
delivers high quality biological systems content in
context, giving you essential data and analytical tools
to accelerate your scientific research.
MetaCore is an integrated software suite for functional
analysis of microarray, metabolic, SAGE, proteomics,
siRNA, microRNA, and screening data. MetaCore is
based on a high-quality, manually-curated database of:
• Transcription factors, receptors, ligands, kinases,
drugs, and endogenous metabolites as well as
other molecular classes
• Species-specific directional interactions between
protein-protein, protein-DNA and protein-RNA
interactions, drug targeting, and bioactive
molecules and their effects
• Signaling and metabolic pathways represented on
maps and networks
• Rich ontologies for diseases and processes with
hierarchical or graphic output
MetaCore can be used for uploading experimental data
with the purpose to discover, validate, and/or develop new
hypotheses for target selection and biomarker research.
The data mining toolkit within MetaCore includes intuitive
apparatus for data visualization, analysis and exchange
of data, multiple networking algorithms, ontology
enrichments, in silico filters, and easy to use workflows.
The system can also be used as a knowledge base to
search for information on genes, proteins, compounds,
diseases, etc. with underlying literature support. Drill
down to the most important answers for your research
with advanced searching, and put your hypothesis to
the test with conditional queries. Access:
• MetaCore database directly and explore content with
handy filters and a quick powerful search engine
• Results and searches flexibly and intuitively organized
• Focused content that you can take from in-silico to
the bench as reliable candidates for experimental
follow up
Functional ontologies, categories, and filters add
relevance and focus to searches, networks, maps,
and workflow criteria, expediting and simplifying your
scientific discovery or evaluation process.
Peer-reviewed and manually curated, the data
contained within MetaCore is industry-leading in
accuracy, reliability, and comprehensiveness. Wide
literature support covering 2,700 scientific journals,
reviewed by PhD and M.D. level research professionals,
provides validity and ease of reference on every page of
the software, while hundreds of thousands of small-
scale experiment protein interactions are defined with
directionality, effect, and mechanisms.
MetaCore has nearly 20 functional ontologies that can
be used for filtering and enrichment, many of which
are unique to MetaCore, interactive canonical pathway
maps capturing nearly 200,000 pathways, and over
1,000 complex formation and group relation schemas
with species specificity. You can use MetaCore to:
• Analyze any experimental high-throughput data in
the context of pathways, networks and maps
• Identify and rank important pathways, networks
and disease terms for your lists of genes, proteins,
transcripts or compounds
• Concurrently visualize and cross-validate different
types of data
• Apply disease, tissue, functional processes and
sub-cellular localization filters to focus networks on
information relevant to study
GeneGo is now part of
Thomson Reuters
Contact us to find out more about MetaCore or visit
AddiTiOnAl inFORMATiOn & AnAlyTiCAl TOOlS
MetaCore also has a range of optional modules, giving
you extra data and tools to advance your research:
• Systems Toxicology Module – a knowledge base and
data analysis module designed for the assessment
of safety liabilities of drugs, environmental
contaminants, and other xenobiotics at all stages
of discovery and development.
• Data Annotation and Processing Tool – a user-
friendly wizard that will manage, annotate, and
statistically process your data in minutes.
• Pathway Map Creator – a software tool for custom
editing of existing canonical pathway maps,
conversion of networks into map views for pathway
analysis, and drawing regulatory and metabolic
maps from scratch.
You also have the option of subscribing to additional
pathway maps generated by partnerships with leading
experts in the following areas, giving you further
information and insight into your research:
• Gastric Cancer
• Hepatocellular Carcinoma
• Huntingdon’s Disease
• Obesity
• Pancreatic Cancer
• Prostate Cancer
• Stem Cells
COnTEnT highlighTS
• Over a million of “small experiment” protein-
protein interactions defined with directionality
and mechanism
• Millions of synonyms resolved for genes, proteins
and compounds
• Thousands of diseases
• Nearly 1000 proprietary maps of canonical
• 40,000 metabolic reactions
• Over 6,500 drugs
• 5,000 endogenous metabolites
• Nearly 700,000 compounds
• About 1,000 interactive canonical pathway
maps capturing nearly 200,000 human, mouse,
and rat fine metabolic and signalling canonical
pathways depicted based on consensus
literature findings
• Species specificity including human, mouse, rat,
dog, chicken, worm, chimpanzee, bovine, zebrafish,
fly, mosquito, mold, bread mold, baker’s yeast,
fission yeast, arabidopsis, rice, candida
• Sub-cellular localization specificity
• Analytical tools include Easy-to use workflows
and reports
• Variable threshold filtering
• Graphic visualizations that serve as “GPS in Pathway
Anlaysis” to guide users through any network
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Copyright © 2011 Thomson Reuters
GeneGo Inc. was acquired by Thomson Reuters in November 2010. GeneGo products, now offered by Thomson Reuters, data
analysis solutions in systems biology. The tools and manually curated databases help to capture and define the underlying
biology behind different types of high-throughput experimental data and understand the effects of small molecule drug
compounds in human tissues and other species. These solutions provide a full range of applications in life science research
and drug development, from pre-clinical discovery and NCE applications to clinical trials, covering all aspects of biology and
chemistry. Thomson Reuters also provides services for analysis and curation in the life sciences field.
This map depicts several key pathways involved in Cystic
Fibrosis with sample disease staging data overlaid from
mircoarray and metabolomic studies.