Report Open Access

The 2017 Whole-Cell Modeling Summer School

Karr, Jonathan R; Lluch-Senar, Maria; Serrano, Luis; Kastelic, Damjana

Whole-cell models that predict phenotype from genotype are needed to advance biology, bioengineering, and medicine. Achieving whole-cell models will require extensive collaboration among modelers, experimentalists, mathematicians, computer scientists, and software engineers. In September 2017, we organized the second Whole-Cell Modeling Summer School to continue to build a whole-cell community by training new researchers. The school created new whole-cell training materials; trained 18 students, postdoctoral scholars, and faculty; and generated ideas about how to better teach whole-cell modeling. To build a whole-cell modeling community, we plan to continue to organize schools, continue to improve these schools based on the lessons that we learned this year, and initiate an annual workshop and/or online seminar series to facilitate sustained discussion about whole-cell modeling.

The school was partly supported by ERASynBio award to JRK, LS, and MLS; Horizon 2020 award 634942 to LS; and National Science Foundation award 1649014 to JRK.
Files (149.2 kB)
Name Size
131.6 kB Download
Supplementary tables.xlsx
17.6 kB Download
  • Tomita, M. Whole-cell simulation: a grand challenge of the 21st century. Trends Biotechnol 19, 205–210 (2001).

  • Karr, J. R., Takahashi, K. & Funahashi, A. The principles of whole-cell modeling. Curr Opin Microbiol 27, 18–24 (2015).

  • Carrera, J. & Covert, M. W. Why build whole-cell models? Trends Cell Biol 25, 719–722 (2015).

  • Karr, J. R. et al. A whole-cell computational model predicts phenotype from genotype. Cell 150, 389–401 (2012).

  • Macklin, D. N., Ruggero, N. A. & Covert, M. W. The future of whole-cell modeling. Curr Opin Biotechnol 28, 111–115 (2014).

  • Goldberg, A. P. et al. Emerging whole-cell modeling principles and methods. Curr Opin Biotechnol (In submission).

  • Szigeti, B et al. A blueprint for human whole-cell modeling. Curr Opin Syst Biol (In submis- sion).

  • Karr, J. R., Lluch-Senar, M, Serrano, L & Carrera, J. The 2016 Whole-Cell Modeling Summer School (2016).

  • Waltemath, D. et al. Toward community standards and software for whole-cell modeling. IEEE Trans Biomed Eng 63, 2007–2014 (2016).

  • Karr, J. R., Lluch-Senar, M, Serrano, L & Kastelic, D. 2017 Whole-Cell Modeling Summer School (2017).

  • Karr, J. R. & Goldberg, A. P. An introduction to whole-cell modeling http://intro-to-wc- (2017).

  • European Molecular Biology Organization. Practical course funding funding-awards/courses-workshops/practical-courses (2017).

All versions This version
Views 7272
Downloads 124124
Data volume 12.7 MB12.7 MB
Unique views 6969
Unique downloads 121121


Cite as