Skip to main content

Analysis of Combinatorial Gene Regulation with Thermodynamic Models

  • Chapter
Frontiers in Computational and Systems Biology

Part of the book series: Computational Biology ((COBO,volume 15))

This is a preview of subscription content, log in via an institution to check access.

Access this chapter

Chapter
USD 29.95
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
eBook
USD 129.00
Price excludes VAT (USA)
  • Available as EPUB and PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book
USD 169.00
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info
Hardcover Book
USD 169.99
Price excludes VAT (USA)
  • Durable hardcover edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Purchases are for personal use only

Institutional subscriptions

References

  1. E. Andrianantoandro, S. Basu, D.K. Karig, and R. Weiss. Synthetic biology: new engineering rules for an emerging discipline. Mol Syst Biol, 2: 2006–2006, 2006.

    Article  Google Scholar 

  2. M.A. Beer and S. Tavazoie. Predicting gene expression from sequence. Cell, 117(2): 185–198, 2004.

    Article  Google Scholar 

  3. L. Bintu, N.E. Buchler, H.G. Garcia, U. Gerland, T. Hwa, J. Kondev, T. Kuhlman, and R. Phillips. Transcriptional regulation by the numbers: applications. Curr Opin Genet Dev, 15(2): 125–135, 2005. Chromosomes and expression mechanisms.

    Article  Google Scholar 

  4. L. Bintu, N.E. Buchler, H.G. Garcia, U. Gerland, T. Hwa, J. Kondev, and R. Phillips. Transcriptional regulation by the numbers: models. Curr Opin Gen Dev, 15(2): 116–124, 2005.

    Article  Google Scholar 

  5. N.E. Buchler, U. Gerland, and T. Hwa. On schemes of combinatorial transcription logic. Proc Natl Acad Sci USA, 100(9): 5136–5141, 2003.

    Article  Google Scholar 

  6. C.C. Chen and S. Zhong. Inferring gene regulatory networks by thermodynamic modeling. BMC Genomics, 9(2) (2008).

    Google Scholar 

  7. C.C. Chen, X.G. Zhu, and S. Zhong. Selection of thermodynamic models for combinatorial control of multiple transcription factors in early differentiation of embryonic stem cells. BMC Genomics, 9(1) (2008).

    Google Scholar 

  8. S. Fessele, H. Maier, C. Zischek, P.J. Nelson, and T. Werner. Regulatory context is a crucial part of gene function. Trends Genet, 18(2): 60–63, 2002.

    Article  Google Scholar 

  9. J. Gertz, E.D. Siggia, and B.A. Cohen. Analysis of combinatorial cis-regulation in synthetic and genomic promoters. Nature, 457(7226): 215–218, 2009.

    Article  Google Scholar 

  10. A.D. Peel, A.D. Chipman, and M. Akam. Arthropod segmentation: beyond the drosophila paradigm. Nat Rev Genet, 6(12): 905–916, 2005.

    Article  Google Scholar 

  11. E. Segal, T. Raveh-Sadka, M. Schroeder, U. Unnerstall, and U. Gaul. Predicting expression patterns from regulatory sequence in drosophila segmentation. Nature, 451(7178): 535–540, 2008.

    Article  Google Scholar 

  12. M.A. Shea and G.K. Ackers. The OR control system of bacteriophage lambda. A physical-chemical model for gene regulation. J Mol Biol, 181(2): 211–230, 1985.

    Article  Google Scholar 

  13. M. Venter. Synthetic promoters: genetic control through cis engineering. Trends Plant Sci, 12(3): 118–124, 2007.

    Article  Google Scholar 

  14. T. Werner, S. Fessele, H. Maier, and P.J. Nelson. Computer modeling of promoter organization as a tool to study transcriptional coregulation. FASEB J, 17(10): 1228–1237, 2003.

    Article  Google Scholar 

Download references

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to Sheng Zhong .

Editor information

Editors and Affiliations

Rights and permissions

Reprints and permissions

Copyright information

© 2010 Springer-Verlag London Limited

About this chapter

Cite this chapter

Chen, CC., Zhong, S. (2010). Analysis of Combinatorial Gene Regulation with Thermodynamic Models. In: Feng, J., Fu, W., Sun, F. (eds) Frontiers in Computational and Systems Biology. Computational Biology, vol 15. Springer, London. https://doi.org/10.1007/978-1-84996-196-7_1

Download citation

  • DOI: https://doi.org/10.1007/978-1-84996-196-7_1

  • Publisher Name: Springer, London

  • Print ISBN: 978-1-84996-195-0

  • Online ISBN: 978-1-84996-196-7

  • eBook Packages: Computer ScienceComputer Science (R0)

Publish with us

Policies and ethics