Comprehensive pharmacogenomic pathway screening by data assimilation

Takanori Hasegawa, Rui Yamaguchi, Masao Nagasaki, Seiya Imoto, Satoru Miyano

研究成果: Conference contribution

6 被引用数 (Scopus)

抄録

We propose a computational method to comprehensively screen for pharmacogenomic pathway simulation models. A systematic model generation strategy is developed; candidate pharmacogenomic models are automatically generated from some prototype models constructed from existing literature. The parameters in the model are automatically estimated based on time-course observed gene expression data by data assimilation technique. The candidate simulation models are also ranked based on their prediction power measured by Bayesian information criterion. We generated 53 pharmacogenomic simulation models from five prototypes and applied the proposed method to microarray gene expression data of rat liver cells treated with corticosteroid. We found that some extended simulation models have higher prediction power for some genes than the original models.

本文言語English
ホスト出版物のタイトルBioinformatics Research and Applications - 7th International Symposium, ISBRA 2011, Proceedings
ページ160-171
ページ数12
DOI
出版ステータスPublished - 2011
イベント7th International Symposium on Bioinformatics Research and Applications, ISBRA 2011 - Changsha, China
継続期間: 2011 5 272011 5 29

出版物シリーズ

名前Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
6674 LNBI
ISSN(印刷版)0302-9743
ISSN(電子版)1611-3349

Other

Other7th International Symposium on Bioinformatics Research and Applications, ISBRA 2011
CountryChina
CityChangsha
Period11/5/2711/5/29

ASJC Scopus subject areas

  • Theoretical Computer Science
  • Computer Science(all)

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