| Autor: |
Strauch Martin, Supper Jochen, Spieth Christian, Wanke Dierk, Kilian Joachim, Harter Klaus, Zell Andreas |
| Jazyk: |
angličtina |
| Rok vydání: |
2007 |
| Předmět: |
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| Zdroj: |
Journal of Integrative Bioinformatics, Vol 4, Iss 1, Pp 81-93 (2007) |
| Druh dokumentu: |
article |
| ISSN: |
1613-4516 |
| DOI: |
10.1515/jib-2007-54 |
| Popis: |
We developed an integrative approach for discovering gene modules, i.e. genes that are tightly correlated under several experimental conditions and applied it to a threedimensional Arabidopsis thaliana microarray dataset. The dataset consists of approximately 23000 genes responding to 9 abiotic stress conditions at 6-9 different points in time. Our approach aims at finding relatively small and dense modules lending themselves to a specific biological interpretation. In order to detect gene modules within this dataset, we employ a two-step clustering process. In the first step, a k-means clustering on one condition is performed, which is subsequently used in the second step as a seed for the clustering of the remaining conditions. To validate the significance of the obtained modules, we performed a permutation analysis and determined a null hypothesis to compare the module scores against, providing a p-value for each module. Significant modules were mapped to the Gene Ontology (GO) in order to determine the participating biological processes. |
| Databáze: |
Directory of Open Access Journals |
| Externí odkaz: |
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