Phenotypic innovation through recombination in genome-scale metabolic networks

Survival and innovation: The role of mutational robustness in evolution

(2015) Mario A. Fares   BIOCHIMIE

BiGG Models: A platform for integrating, standardizing and sharing genome-scale models

(2015) Zachary A. King et al.   NUCLEIC ACIDS RESEARCH

Exhaustive Analysis of a Genotype Space Comprising 1015 Central Carbon Metabolisms Reveals an Organization Conducive to Metabolic Innovation

(2015) Sayed-Rzgar Hosseini et al.   PLoS Computational Biology

Historical contingency and the gradual evolution of metabolic properties in central carbon and genome-scale metabolisms

(2014) Aditya Barve et al.   BMC Systems Biology

sybil – Efficient constraint-based modelling in R

(2013) Gabriel Gelius-Dietrich et al.   BMC Systems Biology

Innovation by homologous recombination

(2013) Devin L Trudeau et al.   CURRENT OPINION IN CHEMICAL BIOLOGY

Basic and applied uses of genome-scale metabolic network reconstructions of Escherichia coli

(2013) D. McCloskey et al.   Molecular Systems Biology

RefSeq microbial genomes database: new representation and annotation strategy

(2013) Tatiana Tatusova et al.   NUCLEIC ACIDS RESEARCH

Constraining the metabolic genotype–phenotype relationship using a phylogeny of in silico methods

(2012) Nathan E. Lewis et al.   NATURE REVIEWS MICROBIOLOGY

Superessential reactions in metabolic networks

(2012) A. Barve et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The role of robustness in phenotypic adaptation and innovation

(2012) A. Wagner   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Network Context and Selection in the Evolution to Enzyme Specificity

(2012) H. Nam et al.   SCIENCE

Genotype networks, innovation, and robustness in sulfur metabolism

(2011) João F Matias Rodrigues et al.   BMC Systems Biology

The molecular origins of evolutionary innovations

(2011) Andreas Wagner   TRENDS IN GENETICS

Enzyme Promiscuity: A Mechanistic and Evolutionary Perspective

(2010) Olga Khersonsky and Dan S. Tawfik   Annual Review of Biochemistry

Genotype networks in metabolic reaction spaces

(2010) Areejit Samal et al.   BMC Systems Biology

Three serendipitous pathways in E. coli can bypass a block in pyridoxal-5′-phosphate synthesis

(2010) Juhan Kim et al.   Molecular Systems Biology

What is flux balance analysis?

(2010) Jeffrey D Orth et al.   NATURE BIOTECHNOLOGY

Domain Recombination: A Workhorse for Evolutionary Innovation

(2010) G. Apic et al.   Science Signaling

Effects of Recombination on Complex Regulatory Circuits

(2009) O. C. Martin et al.   GENETICS

KEGG for representation and analysis of molecular networks involving diseases and drugs

(2009) Minoru Kanehisa et al.   NUCLEIC ACIDS RESEARCH

Evolutionary Plasticity and Innovations in Complex Metabolic Reaction Networks

(2009) João F. Matias Rodrigues et al.   PLoS Computational Biology

Persistence drives gene clustering in bacterial genomes

(2008) Gang Fang et al.   BMC GENOMICS

The growing scope of applications of genome-scale metabolic reconstructions using Escherichia coli

(2008) Adam M Feist et al.   NATURE BIOTECHNOLOGY

Bacteria Subsisting on Antibiotics

(2008) G. Dantas et al.   SCIENCE