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This article is part of the supplement: The International Conference on Intelligent Biology and Medicine (ICIBM): Systems Biology

Open Access Research

A strategy to study pathway cross-talks of cells under repetitive exposure to stimuli

Yan Fu12, Xiaoshan Jiang1, Hang Zhang12 and Jianhua Xing1*

  • * Corresponding author: Jianhua Xing jxing@vt.edu

  • † Equal contributors

Author Affiliations

1 Department of Biological Sciences, Virginia Tech, Blacksburg, VA 24060, USA

2 Interdisciplinary PhD Program of Genetics, Bioinformatics and Computational Biology, Virginia Tech, Blacksburg, VA 24060, USA

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BMC Systems Biology 2012, 6(Suppl 3):S6  doi:10.1186/1752-0509-6-S3-S6

Published: 17 December 2012

Additional files

Additional file 1:

The maximum change distribution of regulators induced by HD or LD+HD under each priming mechanism. First column: Sample distribution in term of maximum change of x1 or x2 under HD alone (i.e., <a onClick="popup('http://www.biomedcentral.com/1752-0509/6/S3/S6/mathml/M13','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1752-0509/6/S3/S6/mathml/M13">View MathML</a>). Second column: distribution of changes between the maximum induction under LD+HD and the maximum induction under HD alone (i.e., <a onClick="popup('http://www.biomedcentral.com/1752-0509/6/S3/S6/mathml/M14','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1752-0509/6/S3/S6/mathml/M14">View MathML</a>). For PS and AI, there is a great increase in x1 under HD, but the maximum expression of x1 under LD+HD and HD alone shows no significant difference; Similarly for PS, x2 expression is enhanced by HD, whereas maximum expression of x2 under LD+HD is almost the same with that under HD alone.

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Additional file 2:

Functional clustering of genes significant increased or decreased (≥2 fold) under LD IFN-γ. The functional clustering is computed according to the enrichment of gene ontology retrieved from GOStat database. The top 10 significantly physiological functions of either LD-induced or LD-reduced genes are listed on the right. The functional clustering is computed by Cytoscape pluggin BiNGO 2.44.

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Additional file 3:

Biochemical reactions and parameters for the computational model.

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Additional file 4:

Variables and ordinary differentiation equations of the computational model.

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