Computational design of synthetic regulatory networks from a genetic library to characterize the designability of dynamical behaviors

Measuring Retroactivity from Noise in Gene Regulatory Networks

(2011) Kyung Hyuk Kim et al.   BIOPHYSICAL JOURNAL

Network design meets in silico evolutionary biology

(2010) Guillermo Rodrigo et al.   BIOCHIMIE

Standard virtual biological parts: a repository of modular modeling components for synthetic biology

(2010) M. T. Cooling et al.   BIOINFORMATICS

An atlas of gene regulatory networks reveals multiple three-gene mechanisms for interpreting morphogen gradients

(2010) James Cotterell et al.   Molecular Systems Biology

Engineering a family of synthetic splicing ribozymes

(2010) Austin J. Che et al.   NUCLEIC ACIDS RESEARCH

Algorithms for automated DNA assembly

(2010) Douglas Densmore et al.   NUCLEIC ACIDS RESEARCH

Designing and engineering evolutionary robust genetic circuits

(2010) Sean C Sleight et al.   Journal of Biological Engineering

Architecture-Dependent Noise Discriminates Functionally Analogous Differentiation Circuits

(2009) Tolga Çağatay et al.   CELL

Growth Rate-Dependent Global Effects on Gene Expression in Bacteria

(2009) Stefan Klumpp et al.   CELL

A tunable synthetic mammalian oscillator

(2009) Marcel Tigges et al.   NATURE

Diversity-based, model-guided construction of synthetic gene networks with predicted functions

(2009) Tom Ellis et al.   NATURE BIOTECHNOLOGY

Automated design of synthetic ribosome binding sites to control protein expression

(2009) Howard M Salis et al.   NATURE BIOTECHNOLOGY

Synthetic Gene Networks That Count

(2009) A. E. Friedland et al.   SCIENCE

Measuring the activity of BioBrick promoters using an in vivo reference standard

(2009) Jason R Kelly et al.   Journal of Biological Engineering

TinkerCell: modular CAD tool for synthetic biology

(2009) Deepak Chandran et al.   Journal of Biological Engineering

Construction and Enhancement of a Minimal Genetic AND Logic Gate

(2008) D. J. Sayut et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

The biphasic behavior of incoherent feed-forward loops in biomolecular regulatory networks

(2008) Dongsan Kim et al.   BIOESSAYS

Computational design of synthetic gene circuits with composable parts

(2008) M.A. Marchisio et al.   BIOINFORMATICS

OptCircuit: an optimization based method for computational design of genetic circuits

(2008) Madhukar S Dasika et al.   BMC Systems Biology

A synthetic Escherichia coli predator–prey ecosystem

(2008) Frederick K Balagaddé et al.   Molecular Systems Biology

Model-guided design of ligand-regulated RNAi for programmable control of gene expression

(2008) Chase L Beisel et al.   Molecular Systems Biology

The incoherent feed-forward loop can generate non-monotonic input functions for genes

(2008) Shai Kaplan et al.   Molecular Systems Biology

Modular cell biology: retroactivity and insulation

(2008) Domitilla Del Vecchio et al.   Molecular Systems Biology

A fast, robust and tunable synthetic gene oscillator

(2008) Jesse Stricker et al.   NATURE

Evolvability and hierarchy in rewired bacterial gene networks

(2008) Mark Isalan et al.   NATURE

Refinement and standardization of synthetic biological parts and devices

(2008) Barry Canton et al.   NATURE BIOTECHNOLOGY

Predictive Behavior Within Microbial Genetic Networks

(2008) I. Tagkopoulos et al.   SCIENCE

Multistable Decision Switches for Flexible Control of Epigenetic Differentiation

(2008) Raúl Guantes et al.   PLoS Computational Biology