Project Description

Associate Professor

hsauro@uw.edu
Phone: (206)685-2119
Office: Foege N410A

Our long term goal is to develop credible and reliable computational models of disease states that could by used by clinicians to more effectively treat disease.
Credible predictive models of disease
Supporting best practicing in computational modeling
Control theory applied of cellular networks
Develop new approaching to mechansistic modeling of cells
My research includes the foillowing broad objectives:

1. Use mathematics and computation to help understand the dynamics and operation of cellular processes.
2. Develop new more reliable approaches to modeling complex systems such that the models can be used with confidence in clinical settings.
3. Disseminate the work to the wider scientific community and support best practices in systems biology modeling multi-scale modeling of subcellular and multicellular systems.

BSc: Biochemistry/Microbiology, University of Canterbury, UK
MSc: Biological Computation, University of York
PhD: Systems Biology, Oxford brookes, UK
PGCE: Teaching Degree, University of Aberystwyth
University of Edinburgh, Department of Genetics, UK
2013 University of Washington College of Engineering, Community of Innovators Awards, Faculty Innovator: Teaching & Learning
BIOEN 336: Systems & Controls
BIOEN 499: Special Topics: Modeling in Systems Bology
Somogyi, ET., JM Bouteiller, JA. Glazier, M König, JK Medley, MH. Swat, and HM. Sauro. “libRoadRunner: a high performance SBML simulation and analysis library.” Bioinformatics 31, no. 20 (2015): 3315-3321.

Entus, R, B Aufderheide, and HM. Sauro. “Design and implementation of three incoherent feed-forward motif based biological concentration sensors.” Systems and synthetic biology 1, no. 3 (2007): 119-128.

Galdzicki, M, KP. Clancy, E Oberortner, M Pocock, JY. Quinn, CA. Rodriguez, N Roehner et al. “The Synthetic Biology Open Language (SBOL) provides a community standard for communicating designs in synthetic biology.” Nature biotechnology 32, no. 6 (2014): 545.

Fell, DA., and HM. Sauro. “Metabolic control and its analysis.” The FEBS Journal 148, no. 3 (1985): 555-561.

Kim, KH., and HM. Sauro. “Adjusting phenotypes by noise control.” PLoS computational biology 8, no. 1 (2012): e1002344.

Kim, KH, H Qian, and HM. Sauro. “Nonlinear biochemical signal processing via noise propagation.” The Journal of chemical physics 139, no. 14 (2013): 10B608_1.

Sleight, SC., BA. Bartley, JA. Lieviant, and HM. Sauro. “In-Fusion BioBrick assembly and re-engineering.” Nucleic acids research 38, no. 8 (2010): 2624-2636.

Paladugu, SR., V. Chickarmane, A. Deckard, J. P. Frumkin, M. McCormack, and H. M. Sauro. “In silico evolution of functional modules in biochemical networks.” IEE Proceedings-Systems Biology 153, no. 4 (2006): 223-235.

Sauro, HM. Enzyme kinetics for systems biology. 2nd Edition, Future Skill Software, 2012.

Sauro, HM. Systems Biology: Introduction to Pathway Modeling, Future Skill Software, 2012.

Hucka, M, A Finney, HM. Sauro, H Bolouri, JC. Doyle, H Kitano, AP. Arkin et al. “The systems biology markup language (SBML): a medium for representation and exchange of biochemical network models.” Bioinformatics 19, no. 4 (2003): 524-531.

Medley, M, Choi K, Matthias K, Smith L, Gu S, Hellerstein J, Sealfon SC, Sauro HM Tellurium Notebooks – An Environment for Dynamical Model Development, Reproducibility, and Reuse (2018), PLoS Comp Bio,.

 

In the News

  • UW Bioengineering faculty Herbert Sauro

Herbert Sauro to lead $6.5M NIH-funded Center for Reproducible Biomedical Modeling

August 20th, 2018|Comments Off on Herbert Sauro to lead $6.5M NIH-funded Center for Reproducible Biomedical Modeling

  • UW's 2017 iGEM team

University of Washington iGEM team wins silver at international competition

November 29th, 2017|Comments Off on University of Washington iGEM team wins silver at international competition

  • Researcher working with liquids

Nonprofit “DIYbio” lab SoundBio featured by Geekwire

January 18th, 2017|Comments Off on Nonprofit “DIYbio” lab SoundBio featured by Geekwire

  • BioE's Yalow family

BioE families foster community, mentoring, leadership for undergraduates

December 7th, 2016|Comments Off on BioE families foster community, mentoring, leadership for undergraduates

  • UW Bioengineers at Engineering Discovery Days
  • Composite image of UW Bioengineering students, faculty and staff leading youth outreach exercises at 2014 Engineering Discovery Days
  • Composite image of UW Bioengineering students, faculty and staff leading youth outreach exercises at 2014 Engineering Discovery Days

UW Bioengineers participate in 2014 Engineering Discovery Days

April 28th, 2014|Comments Off on UW Bioengineers participate in 2014 Engineering Discovery Days

  • Herbert Sauro and Pavel Zrazhevskiy

Herbert Sauro and Pavel Zrazhevskiy Receive UW College of Engineering Community of Innovators Awards

July 30th, 2013|Comments Off on Herbert Sauro and Pavel Zrazhevskiy Receive UW College of Engineering Community of Innovators Awards