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Third-party-funded project

Title:
GEPAT2 (Genome Expression Pathway Analysis Tool 2) - from gene expression to drug

Project management at the University of Würzburg:

Participating scientists:

Abstract:
Molecular Biology produces an ever increasing amount of data. Accordingly, methods for the identification of significant signals in these data are developed. But, the identification of these signals, which mostly consists just of a list of genes, is just the first step. Following, the biological context of this signal has to be uncovered. Previously, we have developed a web based tool (GEPAT) which integrates the identification of significantly de-regulated genes in microarray experiments with the biological evaluation. In this project, we added new methods and data which allow for the evaluation of de-regulated genes in the context of protein interactions and metabolic pathways. Furthermore, genes associated with diseases or known drug targets can be identified. Thus, the core of the proposal ?from gene expression to drug? was fulfilled.
At that point we critically re-evaluated the goals of the project. On the one hand, the impact of microarrays has decreased substantially in the last years compared to the newly emerging second generation sequencing techniques. On the other hand, in the meantime different other web sites and servers with similar goals as GEPAT were developed. We therefore decided to adapt the focus of the project. In the following, we expanded GEPAT to a cross-species platform for the explorative analysis of gene lists. Here, genes which were identified by whatever method can be imported in the system or directly be chosen in the system. Following, these genes can be analyzed under different topics like function, interactions or metabolics. The gene lists can be easily expanded. As the system allows to switch between species and ?translate? the gene lists, (i) information accessible only for some species (e.g. disease, drugs) can be used and (ii) gene lists for model species can be created. Thus, the new target of our system are biologists who want to explorative analyze a limited lists of relevant genes.

Projekt period: from 10.2007 to 09.2010

Funding institution:
DFG ,Granting date: 25.05.2007

Publications:

Links:
GEPAT2