Long-term phenotypic evolution of bacteria

A latent capacity for evolutionary innovation through exaptation in metabolic systems

(2013) Aditya Barve et al.   NATURE

Genome-scale metabolic reconstructions of multiple Escherichia coli strains highlight strain-specific adaptations to nutritional environments

(2013) J. M. Monk et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Global probabilistic annotation of metabolic networks enables enzyme discovery

(2012) Germán Plata et al.   Nature Chemical Biology

The SILVA ribosomal RNA gene database project: improved data processing and web-based tools

(2012) Christian Quast et al.   NUCLEIC ACIDS RESEARCH

Multidimensional Optimality of Microbial Metabolism

(2012) R. Schuetz et al.   SCIENCE

Closely related Campylobacter jejuni strains from different sources reveal a generalist rather than a specialist lifestyle

(2011) Eugenia Gripp et al.   BMC GENOMICS

The decoupling between genetic structure and metabolic phenotypes in Escherichia coli leads to continuous phenotypic diversity

(2011) V. SABARLY et al.   JOURNAL OF EVOLUTIONARY BIOLOGY

Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega

(2011) F. Sievers et al.   Molecular Systems Biology

An integrated approach to characterize genetic interaction networks in yeast metabolism

(2011) Balázs Szappanos et al.   NATURE GENETICS

Hierarchical Evolution of the Bacterial Sporulation Network

(2010) Michiel J.L. de Hoon et al.   CURRENT BIOLOGY

High-throughput generation, optimization and analysis of genome-scale metabolic models

(2010) Christopher S Henry et al.   NATURE BIOTECHNOLOGY

What is flux balance analysis?

(2010) Jeffrey D Orth et al.   NATURE BIOTECHNOLOGY

Applications of genome-scale metabolic reconstructions

(2009) Matthew A Oberhardt et al.   Molecular Systems Biology

The conservation and evolutionary modularity of metabolism

(2009) José M Peregrín-Alvarez et al.   GENOME BIOLOGY

Evolutionary plasticity of genetic interaction networks

(2008) Julia Tischler et al.   NATURE GENETICS

Database resources of the National Center for Biotechnology Information

(2008) E. W. Sayers et al.   NUCLEIC ACIDS RESEARCH

GenBank

(2008) D. A. Benson et al.   NUCLEIC ACIDS RESEARCH

Significant conservation of synthetic lethal genetic interaction networks between distantly related eukaryotes

(2008) S. J. Dixon et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA