Oncomine Concepts Editions

Category Genomics>Gene Expression Analysis/Profiling/Tools

Abstract The Oncomine Concepts Edition is an advanced web application that integrates and unifies high-throughput cancer profiling data so that target expression across a large volume of cancer types, subtypes, and experiments can be assessed online, in seconds.

Additionally, it allows users to search the Oncomine database for enrichment of user-defined gene signatures. These analyses provide valuable insight into biology, regulation, pathways, drug response, and patient populations.

The Oncomine Enterprise Edition provides the ability to securely share user-defined signatures across an organization as well as add proprietary gene expression datasets to the Oncomine database.

Your data goes through the same rigorous curation process as all other Oncomine data, assimilating it to the entire Oncomine database for more advanced meta-analysis.

What you can accomplish with the Oncomine Concepts Editions --

Gene expression and cancer -

1) Easily compare gene expression profiles between cancer and normal samples;

2) Compare gene expression between different molecular, pathological, and clinical cancer subtypes; and

3) Search for genes that distinguish and predict cancer types and subtypes.

Identify and validate -

1) Identify potential drug targets by filtering for “druggable” gene families such as kinases and membrane-bound proteins;

2) Validate target gene expression in normal tissues, benign conditions, hematological malignancies and solid tumors;

3) Investigate expression of genes in pathways and networks associated with cancer; and

4) Identify pathways, processes, chromosomal regions, and regulatory motifs activated in cancer.

Drug and biology interaction -

1) Associate diseases with the gene signature of a compound;

2) Identify pathways regulated by a compound; and

3) Use a compound’s gene signature from animal studies to identify like compounds and potential toxicological associations with it.

Oncomine Concepts Editions features --

Oncomine is a database-driven web application providing users with the ability to navigate, analyze, and visualize gene expression and copy number data and molecular concepts. It offers:

1) Smart search with auto-complete;

2) Multi-gene and multi-term search;

3) Meta-analysis and Meta-COPA;

4) Rapid navigation and visualization of results;

5) Optimized User Interface;

6) Compendia Ontology;

7) Precomputed Analyses;

8) Analysis Comparison;

9) Gene Enrichment;

10) Outlier Analysis;

11) Oncomine Concepts Integration;

12) Bookmarking;

13) Oncomine support community;

14) Export edges and nodes data;

15) Export results to Excel, PowerPoint and SVG; and

16) Proprietary concept upload and association concepts.

The Oncomine platform --

The Oncomine platform is the foundation upon which novel cancer discoveries are made. With more than 445 peer reviewed journal articles referencing Oncomine and ground-breaking discoveries, it has become an industry standard tool.

Supporting both the manufacturer's web applications and scientific services, the Oncomine platform is unique for:

1) Its scalability with 534 independent datasets;

2) Its high-quality, expertly curated data;

3) Its rich, extensive, and controlled ontology of terms; and

4) Its standardized analysis conventions to assure clear and consistent interpretation of results.

The Oncomine Platform - Layers of strength -

The Oncomine Platform is built on four (4) essential and integrated layers that together provide a strong foundation:

1) Data - proactive data collection processes, including direct correspondence with study authors to gather all of the available sample facts, often beyond those presented in the original publication.

Data - The manufacturer's team is dedicated to collecting, analyzing, and integrating the latest data expediently and with acute attention to detail. 534 datasets; 43,000+ samples; and 601,000+ sample facts.

2) Curation - genomic data curation and management principles guided by clinical data quality standards and organized by The Compendia Ontology.

3) Ontology - a comprehensive way to characterize Oncomine data, metadata and analyses that also drives consistent downstream analyses.

Curation & Ontology -

4) Analyses - consistent application of robust, peer-reviewed analysis methods across the entire compendium of Oncomine data.

Analyses - Oncomine is enhanced by an advanced set of analysis functions that compute gene expression signatures, clusters, and gene set modules, automatically extracting biological insights from the data.

Oncomine-Related Services --

An additional advantage of working with Compendia Bioscience on a professional services basis is that the manufacturer's scientists have direct access to the Oncomine data platform and can perform analyses and answer questions that cannot be addressed directly through the Oncomine web applications.

Oncomine Project Edition -

Oncomine Project Edition combines the power of Oncomine and the hands-on experience of Compendia Bioscience to answer your key questions.

Compendia scientists work directly with you to apply Oncomine to your research question within the framework of a professional services project. Included in the project is an Oncomine Project Edition license with direct links to Oncomine analysis results as project deliverables wherever possible.

After Compendia scientists have done the heavy lifting and provided key sets of results, you and your colleagues can pick up the research from that point in order to ask and answer additional follow-up questions related to your research project.

OncoPredictor™ -

OncoPredictor combines cell line profiling services, OncoPanel 240, from Ricerca Biosciences with Oncomine and Compendia’s scientific services to identify genomic biomarkers of drug sensitivity and resistance and patient populations most enriched for those biomarkers.

Human Tumor Xenograft discovery and validation --

Compendia works with partners who specialize in human tumor grafts and other in vivo services helping your program to prioritize lead compounds, narrow down possible disease indications, and identify biomarkers to stratify patient populations in clinical trials.

New Data Release --

The data released on January 11, 2011 includes many new datasets that can be applied to your cancer research efforts, including the manufacturer's largest Oncomine dataset yet, which consists of over 3,000 leukemia samples profiled for the Microarray Innovations in Leukemia (MILE) program.

Plus, Colorectal, Lung and Ovarian cancer types have been enriched with hundreds of new gene expression clinical specimens.

System Requirements

Contact manufacturer.


Manufacturer Web Site Oncomine Concepts Editions

Price Contact manufacturer.

G6G Abstract Number 20015R

G6G Manufacturer Number 100644