Stroberg, H. Aktin, Y. Savir, S. Schnell (2018) How to design an optimal sensor network for the unfolded protein response Molecular Biology of the Cell 

Avesar, J, Y Blinder, H Aktin, A Szklanny, D Rosenfeld, Y Savir, M Bercovici, and S Levenberg. (2018)  Nanoliter Cell Culture Array with Tunable Chemical Gradients  Analytical chemistry

Savir, Y.* ,Martyno.A.Springer, M*. (2017), Achieving global perfect homeostasis through transporter regulation. PLoS Computational Biology 13(4): p. e1005458.
(* Corresponding authors)

Savir, Y.* and T. Tlusty. (2016), Comment on “Ribosome utilizes the minimum free energy changes to achieve the highest decoding rate and fidelity”. Physical Review E,
(* Corresponding author)

DeGennaro, CM,*, Savir, Y.*, Springer, M. (2016) Identifying Metabolic Subpopulations from Population Level Mass Spectrometry PLoS One
(* Equal contribution)

Savir, Y, Kagan, J., Tlusty, T. (2015) Binding of transcription factors adapts to resolve information-energy trade-off   Journal of Statistical Physics,

Savir, Y., Tu, BP, Springer, M. (2015) Competitive Inhibition Can Linearize Dose-Response and Generate a Linear Rectifier. Cell Systems
(see also Preview and Editorial)

Escalante R.*, Savir, Y.*, Carroll, SM., Ingraham, J.B., Wang, J., Marx, C.J., and Springer, M. (2015) Galactose metabolic genes in yeast respond to a ratio of galactose and glucose. Proc Natl Acad Sci U S A 112(5): 1636-1641.
(* Equal contribution, in alphabetical order)

Wang, J., Atolia, E., Hua, B., Savir, Y,. Escalante R.Springer, M. (2015) Cost-Benefit Tradeoff Underlies Natural Variation in Preparation for Nutrient Depletion ,PLoS Biology 13(1): e1002041.

Savir, Y., and Tlusty, T. (2013). The ribosome as an optimal decoder: a lesson in molecular recognition. Cell 153, 471-479.

Savir, Y*., Waysbrot, N*,. Antebi, YE., Tlusty, T. Friedman, N. (2012). Balancing speed and accuracy of polyclonal T cell activation: a role for extracellular feedback. BMC Syst Biol, 27;(6)
(* Equal contribution, in alphabetical order)

Bar-Even, A., Noor, E., Savir, Y., Liebermeister, W., Davidi, D., Tawfik, D. S., & Milo, R. (2011). The moderately efficient enzyme: evolutionary and physicochemical trends shaping enzyme parameters. Biochemistry, 50(21)

Savir, Y. and Tlusty, T. (2010). RecA-Mediated Homology Search as a Nearly Optimal Signal Detection System, Mol. cell, 40(3), 388-396.
(see also cover image and preview in Mol. Cell)

Savir, Y., Noor, E., Milo, R., and Tlusty, T. (2010). Cross-species analysis traces adaptation of Rubisco toward optimality in a low-dimensional landscape. Proc Natl Acad Sci U S A 107, 3475-3480.

Savir, Y. and Tlusty, T. (2009). Molecular Recognition as an Information Channel: The Role of Conformational Changes, CISS 2009, 835-840.

Savir, Y. and Tlusty, T. (2008). Optimal Design of a Molecular Recognizer : Molecular Recognition as a Bayesian Signal Detection Problem. IEEE J Sel Topics Signal Process 2, 390-399.

Savir, Y. and Tlusty, T. (2007). Conformational proofreading: the impact of conformational changes on the specificity of molecular recognition. PLoS ONE 2, e468.
(see also review in Nature)