Genomic data analysis platform (geWorkbench)
Analyze, visualize, and annotate microarray-based gene expression and sequence data using geWorkbench. This desktop platform offers a comprehensive and extensible collection of tools for integrated analysis of genomic data through the integration of visualization tools, external databases, and computational services.
- Read the geWorkbench Fact Sheet for a basic overview
- Watch the geWorkbench Introductory presentation for a full capabilities overview
What would you like to do?
Visit the geWorkbench section of the Molecular Analysis Tools Knowledge Center to submit questions, comments, feature requests, bug reports, and end-user requirements.
Genomic/clinical data on glioblastoma multiforme (GBM) and ovarian tumors
(Available through TCGA)
- Learn about The Cancer Genome Atlas (TCGA) project
- Visit the TCGA Data Portal website
- Access the TCGA data
Gene expression/genomic characterizations and gene sequencing data for acute lymphoblastic and myeloid leukemias (ALL and AML), neuroblastoma, osteosarcoma, and high-risk Wilms tumor in children
(Available through TARGET)
- Learn about the TARGET project
- Visit the TARGET website
- Visit the TARGET Data Portal
- Browse the open-access TARGET data
- Apply for authorized access to the controlled-access TARGET data
- Access the TARGET data through the Authorized Access system
Human genes that have associations with cancer
(Available through the Cancer Gene Index)
Microarray gene expression data across a variety of cancers
(Available through NCI-hosted instance of caArray)
- Learn more about caArray
- Review a complete list of all available microarray datasets
- Register for free access to download and analyze this data
- Sample Data: GlaxoSmithKline has generated and donated SNP and expression data for over 300 cancer cell lines and made this information available through caArray.
Pre-surgical brain tumor MRI images matched to gene expression data
(Available through VASARI)
Prostate and breast cancer SNPs
(Available through the CGEMS)
- Learn about the Cancer Genetic Markers of Susceptibility (CGEMS) project
- Visit the CGEMS Data Portal website
- Apply for authorized access to CGEMS data
- Access the CGEMS data through the Authorized Access system
Primary brain tumor data matched to molecular and clinical data
(Available through REMBRANDT)
Examine gene and chromosomal information, analyze expression data, and correlate this information with clinical outcomes data from the TCGA, REMBRANDT, and TARGET programs using the caBIG® Molecular Analysis Portal (CMA).
- Learn more about this portal and the steps to getting access and conducting research
- Access the CMA Portal
Correlate genomic and expression data with outcomes using analytical tools from the NCI-hosted instance of caIntegrator and data from TCGA, TARGET, REMBRANDT, the Director's Challenge Lung Cancer Study, and the CoCaNUT colon cancer study.
- Learn more about this portal and the steps to conducting research
- Access the NCI-hosted instance of caIntegrator
Examine gene expression, gene copy number data, and clinical outcomes from glioma patients using the REpository for Molecular BRAin Neoplasia DaTa (REMBRANDT).
geWorkbench is developed and maintained by the Integrative Cancer Research (ICR) Workspace, which works to produce interoperable tools and resources to assist researchers in the analysis of molecular and genomic data.
caBIG® offers a number of support options for those learning about and deploying caBIG® tools and resources.
geWorkbench is part of a collection of life science software tools designed to facilitate the discovery of the next generation of cancer diagnostics and therapeutics. Other applications and infrastructure of interest include:
- Genomic data workflow tool (GenePattern): Analyze gene expression, proteomic, and SNP data; create multi-step analysis pipelines that enable in silico research.
- Genomic variation analyzer (caGWAS): Integrate, query, analyze, and report associations between genetic variations and disease, drug response, and other clinical outcomes.
- Microarray data management system (caArray): Support annotation and exchange of array data; integrate array data with clinical, imaging, tissue, and other functional genomics data.
- Data analysis portal (caIntegrator): Access and analyze clinical and experimental data across multiple clinical trials and studies.
- Molecular analysis portal (CMA): Find novel correlations between data and observations using analytical tools that help to visualize and integrate genomic data with corresponding clinical information.