Note to users. If you're seeing this message, it means that your browser cannot find this page's style/presentation instructions -- or possibly that you are using a browser that does not support current Web standards. Find out more about why this message is appearing, and what you can do to make your experience of our site the best it can be.


Sci. Signal., 20 November 2012
[DOI: 10.1126/scisignal.2003363]

Supplementary Materials for:

Attractor Landscape Analysis Reveals Feedback Loops in the p53 Network That Control the Cellular Response to DNA Damage

Minsoo Choi, Jue Shi, Sung Hoon Jung, Xi Chen, Kwang-Hyun Cho*

*To whom correspondence should be addressed. E-mail: ckh{at}kaist.ac.kr

This PDF file includes:

  • Text (sections 1 to 4)
  • Fig. S1. The attractor landscapes of the p53 regulatory network in normal cells under different conditions.
  • Fig. S2. The attractor landscapes of the p53 regulatory network in MCF7 cells in the absence and presence of DNA damage and with different inhibitory treatments.
  • Fig. S3. Robustness of the cyclic attractor against µ and c.
  • Fig. S4. Knockdown of Wip1 by RNAi in MCF7 cells.
  • Fig. S5. Transformation of a state transition logic into a linear function with the weight of each link and the base level (the basal activity) of each node.
  • Table S1. Positive and negative feedbacks interlinked through p53 in the p53 network.
  • Table S2. The stable states of the p53 network in response to each of the single node deletions.
  • Table S3. The stable states of the p53 network in response to each of the single link deletions.
  • Table S4. Boolean rules specifying the state transition logic.
  • Tables S5 and S6 legends
  • References (53–107)
  • Movies S1 to S5 legend

[Download PDF]

Technical Details

Format: Adobe Acrobat PDF

Size: 2.28 MB

Other Supplementary Material for this manuscript includes the following:

  • Table S5 (Microsoft Excel format). All the state transition logics and the range of possible parameter sets for each node that satisfy the same state transition logic.
  • Table S6 (Microsoft Excel format). A list of all states in the deterministic Boolean network together with the corresponding potential energy in the probabilistic Boolean network.
  • Movie S1 (.avi format). Supporting movie of p53 dynamics under etoposide alone.
  • Movie S2 (.avi format). Supporting movie of p53 dynamics under etoposide + nutlin-3.
  • Movie S3 (.avi format). Supporting movie of p53 dynamics under etoposide + Wip1 knockdown.
  • Movie S4 (.avi format). Supporting movie of p53 dynamics under etoposide + nutlin-3 + Wip1 knockdown.
  • Movie S5 (.avi format). Supporting movie of p53 dynamics under nutlin-3 + Wip1 knockdown.

[Download Movies S1 to S5 (Compressed)]

Files are packaged as a compressed archive, in *.zip format; users should download the compressed file to their machine and decompress the file on their local hard drive, using the instructions below.

Instructions for downloading and decompressing files:

  1. Create a temporary folder on your machine's hard drive.
  2. Save the compressed archive to the temporary folder you created, using the links above.
  3. Decompress the compressed file in the temporary folder using decompression software such as WinZip (Windows; www.winzip.com) or StuffIt Expander (Windows and Mac; www.stuffit.com).

Citation: M. Choi, J. Shi, S. H. Jung, X. Chen, K.-H. Cho, Attractor Landscape Analysis Reveals Feedback Loops in the p53 Network That Control the Cellular Response to DNA Damage. Sci. Signal. 5, ra83 (2012).

© 2012 American Association for the Advancement of Science


To Advertise     Find Products


Science Signaling. ISSN 1937-9145 (online), 1945-0877 (print). Pre-2008: Science's STKE. ISSN 1525-8882