Derivation of Transcriptional Regulatory Relationships by Partial Least Squares Regression

Tan M., POLAT F., Alhajj R.

IEEE International Conference on Bioinformatics and Biomedicine (BIBMW 2009), Washington, Kiribati, 1 - 04 November 2009, pp.88-89 identifier identifier

  • Publication Type: Conference Paper / Full Text
  • Doi Number: 10.1109/bibm.2009.62
  • City: Washington
  • Country: Kiribati
  • Page Numbers: pp.88-89
  • Middle East Technical University Affiliated: Yes


As the number of genes in a transcriptional regulatory network is large and the number of samples in biological data types is usually small, there is a need for integrating multiple data types for reverse engineering these networks. In this paper, we propose a method to integrate microarray gene expression, ChIP-chip and transcription factor binding motif data sets in a partial least squares regression model to derive transcription factors (TFs) gene interactions. Both single and synergistic effects of TFs on the promoters are considered in the model. A method that dynamically updates the significance level based on ChIP-chip and binding motif data is proposed. The results evaluated by methods based on Gene Ontology demonstrate the effectiveness of the proposed approach.