D-GEM Home

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D-GEM (Disease-to-Gene Expression Mapper) is a publicly accessible repository for microarray data of human disease tissues. Gene expression patterns could reflect gene regulations in human tissues under normal or pathological conditions. Gene expression profiling data of primary human disease samples are particularly valuable since the studies often span many years in order to achieve large sample size and to collect patient clinical information. D-GEM provides a desirable community resource to access and analyze these data. Currently, it includes Affymetrix oligonucleotide array datasets for more than 40 human diseases and 1400 samples. The data was normalized to the same scale and stored in a SQL Server relational database. A statistical analysis pipeline was implemented to identify genes over-expressed in disease tissues in comparison with the corresponding normal controls, or genes whose expressions are associated with clinical parameters such as cancer patient survival.

Data mining results can be queried through a web-based interface at http://dgem.cs.iupui.edu/. Queries can be performed at either the disease level for retrieving a list of genes up-regulated in a disease, or at the gene level for identifying diseases that the gene of interest is abnormally expressed. Our query tool enables dynamic generation of graphs and tables that are further linked to major gene and pathway resources, including Entrez Gene, OMIM and KEGG that connect the data to relevant biology.

In summary, as a public gateway to gene expression profiling data of human disease samples, DGEM provides scientists and physicians a valuable tool to study disease mechanisms and to identify novel gene targets for drug discovery.