caIntegrator: Home

CGEMS Data Portal (caGWAS Data Portal hosted at CBITT)

caGWAS Home

Cancer Genome-Wide Association Studies (caGWAS) allows researchers to integrate, query, report, and analyze significant associations between genetic variations and disease, drug response or other clinical outcomes. New breakthroughs in SNP array technologies make it possible to genotype hundreds of thousands of single nucleotide polymorphisms (SNPs) simultaneously, enabling whole genome association studies. Within the Clinical Genomic Object Model (CGOM), the caIntegrator team created a domain model for Whole Genome Association Study Analysis. CGOM-caGWAS is a semantically annotated domain model that captures associations between Study, Study Participant, Disease, SNP Association Analysis, SNP Population Frequency and SNP annotations.

Following the principals of caBIG, caGWAS APIs and web portal provide:

A semantically annotated domain model, database schema with sample data, seasoned middleware, APIs, and web portal for GWAS data;
platform and disease agnostic CGOM-caGWAS model and associated APIs;
the opportunity for developers to customize the look and feel of their GWAS portal;
a foundation of open source technologies;
a well-tested and performance-enhanced platform, as the same software is being used to house the CGEMS data portal at https://caintegator.nci.nih.gov/cgems;
accelerated analysis of results from various biomedical studies; and
a single application through which researchers and bioinformaticians can access and analyze clinical and experimental data from a variety of data types, as caGWAS objects are part of the CGOM, which includes microarray, genomic, immunohistochemistry, imaging, and clinical data.

Download

caGWAS source code is available for local installation at the NCICB download site or from the caGWAS Gforge download page .

Feedback & Feature Requests

caGWAS users are encouraged to sign up for a GForge account and join the caGWAS project to submit feedback and feature requests. Go to https://gforge.nci.nih.gov and click on 'New Account' in the upper right hand corner. For further assitance, please consult the GForge Quick Start and User Guide.

We encourage users to visit Gforge to get up-to-the-minute access to the state of caGWAS, caIntegrator and its related projects. Not only does GForge provide access to all the application assets, it is also the place where one can report bugs or request new features, and as importantly, keep up-to-date with their ongoing status.

Technical Documentation

caGWAS Portal Bundle

caGWAS ver 1.0 Release Notes
caGWAS Configuration Guide
caGWAS Technical Guide

News

```
caGWAS  v1.0		-- February 2008
```
```
CGEMS   v1.4		-- February 2008
```
```
CGEMS   v1.3		-- October 2007 
```
```
CGEMS   v1.1		-- February 2007
```
```
CGEMS   v1.0		-- October 2006 
```