Identifying hidden confounders in gene networks by Bayesian networks

Tomoya Higashigaki, Kaname Kojima, Rui Yamaguchi, Masato Inoue, Seiya Imoto, Satoru Miyano

研究成果: Conference contribution

3 引用 (Scopus)

抜粋

In the estimation of gene networks from microarray gene expression data, we propose a statistical method for quantification of the hidden confounders in gene networks, which were possibly removed from the set of genes on the gene networks or are novel biological elements that are not measured by microarrays. Due to high computational cost of the structural learning of Bayesian networks and the limited source of the microarray data, it is usual to perform gene selection prior to the estimation of gene networks. Therefore, there exist missing genes that decrease accuracy and interpretability of the estimated gene networks. The proposed method can identify hidden confounders based on the conflicts of the estimated local Bayesian network structures and estimate their ideal profiles based on the proposed Bayesian networks with hidden variables with an EM algorithm. From the estimated ideal profiles, we can identify genes which are missing in the network or suggest the existence of the novel biological elements if the ideal profiles are not significantly correlated with any expression profiles of genes. To the best of our knowledge, this research is the first study to theoretically characterize missing genes in gene networks and practically utilize this information to refine network estimation.

元の言語English
ホスト出版物のタイトル10th IEEE International Conference on Bioinformatics and Bioengineering 2010, BIBE 2010
ページ168-173
ページ数6
DOI
出版物ステータスPublished - 2010 9 6
イベント10th IEEE International Conference on Bioinformatics and Bioengineering, BIBE-2010 - Philadelphia, PA, United States
継続期間: 2010 5 312010 6 3

出版物シリーズ

名前10th IEEE International Conference on Bioinformatics and Bioengineering 2010, BIBE 2010

Conference

Conference10th IEEE International Conference on Bioinformatics and Bioengineering, BIBE-2010
United States
Philadelphia, PA
期間10/5/3110/6/3

ASJC Scopus subject areas

  • Biomedical Engineering
  • Health Informatics

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  • これを引用

    Higashigaki, T., Kojima, K., Yamaguchi, R., Inoue, M., Imoto, S., & Miyano, S. (2010). Identifying hidden confounders in gene networks by Bayesian networks. : 10th IEEE International Conference on Bioinformatics and Bioengineering 2010, BIBE 2010 (pp. 168-173). [5521696] (10th IEEE International Conference on Bioinformatics and Bioengineering 2010, BIBE 2010). https://doi.org/10.1109/BIBE.2010.35