The Open UniversitySkip to content

Transcriptional Gene Regulatory Network Reconstruction through Cross Platform Gene Network Fusion

Seghal, Shoaib; Gondal, Iqbal; Dooley, Laurence S.; Coppel, Ross and Mok, Goh Kiah (2007). Transcriptional Gene Regulatory Network Reconstruction through Cross Platform Gene Network Fusion. In: ed. Pattern Recognition in Bioinformatics. Lecture Notes in Computer Science. Springer, pp. 274–285.

DOI (Digital Object Identifier) Link:
Google Scholar: Look up in Google Scholar


Microarray gene expression data is used to model differential activity in Gene Regulatory Networks (GRN) to elucidate complex cellular processes, though network modeling is susceptible to errors due to both noisy nature of gene expression data and platform bias. This intuitively provided the motivation for the development of an innovative technique, which effectively integrates GRN using cross-platform data to minimize the two aforementioned effects. This paper presents a GRN integration (GeNi) framework that fuses cross-platform GRN to remove platform and experimental bias using the Dempster Shafer Theory of Evidence. The proposed model estimates gene co-regulation strength by using mutual information and removes spurious co-regulations through data processing inequality. The method automatically adapts to the data distribution using Belief theory, which does not require a preset threshold to accept co-regulated links. GeNi is applied to identify common cancer-related regulatory links in ten different datasets generated by different microarray platforms including cDNA and Affymetrix arrays. Experimental results demonstrate that GeNi can be effectively applied for GRN reconstruction and cross-platform gene network fusion for any gene expression data.

Item Type: Book Chapter
ISBN: 3-540-75285-4, 978-3-540-75285-1
Academic Unit/Department: Mathematics, Computing and Technology > Computing & Communications
Mathematics, Computing and Technology
Interdisciplinary Research Centre: Centre for Research in Computing (CRC)
Item ID: 10539
Depositing User: Laurence Dooley
Date Deposited: 08 Apr 2008
Last Modified: 14 Jan 2016 16:53
Share this page:


Scopus Citations

▼ Automated document suggestions from open access sources

Actions (login may be required)

Policies | Disclaimer

© The Open University   + 44 (0)870 333 4340