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Open Access Highly Accessed Research article

Construction of a cancer-perturbed protein-protein interaction network for discovery of apoptosis drug targets

Liang-Hui Chu and Bor-Sen Chen*

Author Affiliations

Lab of Control and Systems Biology, National Tsing Hua University, Hsinchu, 300, Taiwan

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BMC Systems Biology 2008, 2:56  doi:10.1186/1752-0509-2-56

Published: 30 June 2008

Additional files

Additional file 1:

Supplementary Table 1. Global protein-protein interactions of apoptosis in HeLa cells and normal primary human lung fibroblasts.

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Additional file 2:

Supplementary Table 2. Gain-of-function proteins in Figure 2A, ranked by the degree of perturbation.

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Additional file 3:

Supplementary Table 3. Loss-of-function proteins in Figure 2B, ranked by the degree of perturbation.

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Additional file 4:

Supplementary Table 4. Eighty-six BCL2-interacting proteins identified from our results, the HPRD (Human Protein Reference Database), and literature review.

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Additional file 5:

Supplementary Table 5. Dynamic caspase protein-protein interactions in HeLa cells.

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Additional file 6:

Supplementary Table 6. Dynamic caspase protein-protein interactions in normal human primary lung fibroblasts.

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Additional file 7:

Supplementary Table 7. Microarray data [26] containing genomic expression profiles of HeLa cells under ER stress.

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Additional file 8:

Supplementary Table 8. Microarray data [26] containing genomic expression profiles of normal human primary lung fibroblasts under ER stress.

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Additional file 9:

Matlab Programs. Five Matlab programs were used in this study. These include the AIC method, protein-protein interaction networks of apoptosis under ER stress in HeLa cells and normal primary human lung fibroblasts, and dynamic protein-protein interaction networks of caspase activation under ER stress in HeLa and normal cells.

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Additional file 10:

Codes of Figures. Eight Osprey codes used to drawing the Figures showing protein-protein interactions in this study (Figs. 1, 2, and 4).

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