Biological function is governed by highly integrated networks that exhibit nonlinear dynamics at all biochemical/molecular, cellular, and organismal levels. We believe that engineering principles can be employed to better understand, predict, and control complex biological functions, and that these principles need to be informed by biology.
The Bagheri Lab operates at the evolving interface between engineering and biology, promoting a diverse, creative research environment consisting of engineers and basic scientists that share the common mission of advancing medicine and biology. Through this collective effort, we aim to identify design principles that underlie complex biological function, and modulate extrinsic factors to optimize therapeutic interventions.
Dynamic transcription factor activity profiles reveal key regulatory interactions during megakaryocytic and erythroid differentiation. Duncan MT, Shin S, Wu JJ, Mays Z, Weng S, Bagheri N, Miller WM, and Shea LD. Biotechnology and Bioengineering. 2014 October;111(10):2082-2094.
A Systems Approach to Integrative Biology: An Overview of Statistical Methods to Elucidate Association and Architecture. Ciaccio MF, Finkle JD, Xue AY, and Bagheri N. Integrative & Comparative Biology. 2014 July;54(2):296-306.
Polyfunctional responses by human T cells result from sequential release of cytokines. Han Q, Bagheri N, Bradshaw EM, Hafler DA, Lauffenburger DA, and Love JC. PNAS. 2012 January 31;109(5):1607-1612.
A Dynamical Systems Model for Combinatorial Cancer Therapy Enhances Oncolytic Adenovirus Efficacy by MEK-inhibition. Bagheri N, Shiina M, Lauffenberger DA, and Korn WM. PLoS Computational Biology. 2011 February 17;7(2):e1001085.
Modeling the Drosophila melanogaster Circadian Oscillator via Phase Optimization. Bagheri N, Lawson MJ, Stelling J, and Doyle FJ. Journal of Biological Rhythms. 2008 December;23(6):525-537.
Synchrony and entrainment properties of robust circadian oscillators. Bagheri N, Taylor SR, Meeker K, Petzold LR, and Doyle FJ. Journal of the Royal Society Interface. 2008 August 6;5(S1):S17-S28.
Circadian Phase Resetting via Single and Multiple Control Targets. Bagheri N, Stelling J, and Doyle FJ. PLoS Computational Biology. 2008 July 4;4(7):e1000104.
Circadian phase entrainment via nonlinear model predictive control. Bagheri N, Stelling J, and Doyle FJ. International Journal of Rubust and Nonlinear Control. 2007 November 25;17(17):1555-1571.
Quantitative performance metrics for robustness in circadian rhythms. Bagheri N, Stelling J, and Doyle FJ. Bioinformatics. 2007 February 1;23(3):358-364.
Circadian rhythm: A natural, robust, multi-scale control system. Doyle FJ, Gunawan R, Bagheri N, Mirsky H, and To TL. Computers & Chemical Engineering. 2006 September 12;30(10-12):1700-1711.
View all publications by Neda Bagheri listed in the National Library of Medicine (PubMed). Current and former IBiS students in blue.