Skip to main content

Uncovering Transcriptional Regulatory Networks by Sparse Bayesian Factor Model

Abstract

The problem of uncovering transcriptional regulation by transcription factors (TFs) based on microarray data is considered. A novel Bayesian sparse correlated rectified factor model (BSCRFM) is proposed that models the unknown TF protein level activity, the correlated regulations between TFs, and the sparse nature of TF-regulated genes. The model admits prior knowledge from existing database regarding TF-regulated target genes based on a sparse prior and through a developed Gibbs sampling algorithm, a context-specific transcriptional regulatory network specific to the experimental condition of the microarray data can be obtained. The proposed model and the Gibbs sampling algorithm were evaluated on the simulated systems, and results demonstrated the validity and effectiveness of the proposed approach. The proposed model was then applied to the breast cancer microarray data of patients with Estrogen Receptor positive () status and Estrogen Receptor negative () status, respectively.

Publisher note

To access the full article, please see PDF.

Author information

Affiliations

Authors

Corresponding author

Correspondence to Yufei Huang.

Rights and permissions

Open Access This article is distributed under the terms of the Creative Commons Attribution 2.0 International License ( https://creativecommons.org/licenses/by/2.0 ), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

Reprints and Permissions

About this article

Cite this article

Meng, J., Zhang, J., Qi, Y. et al. Uncovering Transcriptional Regulatory Networks by Sparse Bayesian Factor Model. EURASIP J. Adv. Signal Process. 2010, 538919 (2010). https://doi.org/10.1155/2010/538919

Download citation

Keywords

  • Breast Cancer
  • Estrogen Receptor
  • Transcriptional Regulation
  • Microarray Data
  • Quantum Information