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BioMed Research International
Volume 2013 (2013), Article ID 512086, 14 pages
Research Article

Systems Approaches Evaluating the Perturbation of Xenobiotic Metabolism in Response to Cigarette Smoke Exposure in Nasal and Bronchial Tissues

Philip Morris International R&D, Philip Morris Products SA, Quai Jeanrenaud 5, 2000 Neuchâtel, Switzerland

Received 17 June 2013; Revised 14 August 2013; Accepted 16 August 2013

Academic Editor: Tao Huang

Copyright © 2013 Anita R. Iskandar et al. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

Supplementary Material

The negative control analysis was generated by computing a permutation test. The permutation test is used to examine whether the correlation obtained by comparing the differential network backbone values were merely due to the dimension reduction effect. The genes underlying the network (i.e., the transcriptional layer) were randomly permuted 1000 times for each of the comparison group to de-correlate the fold-changes of gene expression (the GSE16008 nasal vs. bronchial data were used in this example). Subsequently, correlations between the differential network backbone values were computed. This approach leads to a P-value 0.002 two-sided (Supplementary Figure 1).

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