Rapid Discrimination Among Putative Mechanistic Models of Biochemical Systems

Design Space Toolbox V2: Automated Software Enabling a Novel Phenotype-Centric Modeling Strategy for Natural and Synthetic Biological Systems

(2016) Jason G. Lomnitz et al.   Frontiers in Genetics

Strategy Revealing Phenotypic Differences among Synthetic Oscillator Designs

(2014) Jason G. Lomnitz et al.   ACS Synthetic Biology

Phenotypic deconstruction of gene circuitry

(2013) Jason G. Lomnitz et al.   CHAOS

Mechanistic Explanations and Models in Molecular Systems Biology

(2013) Fred C. Boogerd et al.   Foundations of Science

A bistable hysteretic switch in an activator–repressor regulated restriction–modification system

(2013) Kristen Williams et al.   NUCLEIC ACIDS RESEARCH

Molecular mechanisms of multiple toxin-antitoxin systems are coordinated to govern the persister phenotype

(2013) R. A. Fasani et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Mapping Differentiation under Mixed Culture Conditions Reveals a Tunable Continuum of T Cell Fates

(2013) Yaron E. Antebi et al.   PLOS BIOLOGY

Regulatory Design Governing Progression of Population Growth Phases in Bacteria

(2012) Agustino Martínez-Antonio et al.   PLoS One

Automated construction and analysis of the design space for biochemical systems

(2010) R. A. Fasani et al.   BIOINFORMATICS

Phenotypic repertoire of the FNR regulatory network in Escherichia coli

(2010) Dean A. Tolla et al.   MOLECULAR MICROBIOLOGY

Robust multicellular computing using genetically encoded NOR gates and chemical ‘wires’

(2010) Alvin Tamsir et al.   NATURE

Understanding gene circuits at cell-fate branch points for rational cell reprogramming

(2010) Joseph X. Zhou et al.   TRENDS IN GENETICS

Parameter Estimation and Model Selection in Computational Biology

(2010) Gabriele Lillacci et al.   PLoS Computational Biology

Qualitatively distinct phenotypes in the design space of biochemical systems

(2009) Michael A. Savageau et al.   FEBS LETTERS

Phenotypes and tolerances in the design space of biochemical systems

(2009) M. A. Savageau et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Quantifying Global Tolerance of Biochemical Systems: Design Implications for Moiety-Transfer Cycles

(2009) Pedro M. B. M. Coelho et al.   PLoS Computational Biology