Evolution of protein-protein interaction networks in yeast

Efficient prediction of human protein-protein interactions at a global scale

(2014) Andrew Schoenrock et al.   BMC BIOINFORMATICS

The BioGRID interaction database: 2015 update

(2014) Andrew Chatr-aryamontri et al.   NUCLEIC ACIDS RESEARCH

CBS domains: Ligand binding sites and conformational variability

(2013) June Ereño-Orbea et al.   ARCHIVES OF BIOCHEMISTRY AND BIOPHYSICS

A New System for Comparative Functional Genomics of Saccharomyces Yeasts

(2013) A. A. Caudy et al.   GENETICS

A Probabilistic Model of Neutral and Selective Dynamics of Protein Network Evolution

(2013) Janusz Dutkowski et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

A Conserved Mammalian Protein Interaction Network

(2013) Åsa Pérez-Bercoff et al.   PLoS One

The Evolutionary Dynamics of Protein-Protein Interaction Networks Inferred from the Reconstruction of Ancient Networks

(2013) Yuliang Jin et al.   PLoS One

Metabolomic Comparison of Saccharomyces cerevisiae and the Cryotolerant Species S. bayanus var. uvarum and S. kudriavzevii during Wine Fermentation at Low Temperature

(2013) María López-Malo et al.   PLoS One

The Molecular Diversity of Adaptive Convergence

(2012) O. Tenaillon et al.   SCIENCE

Short Co-occurring Polypeptide Regions Can Predict Global Protein Interaction Maps

(2012) Sylvain Pitre et al.   Scientific Reports

Revisiting the negative example sampling problem for predicting protein-protein interactions

(2011) Y. Park et al.   BIOINFORMATICS

Bugs, drugs and chemical genomics

(2011) Terry Roemer et al.   Nature Chemical Biology

Systems-biology approaches for predicting genomic evolution

(2011) Balázs Papp et al.   NATURE REVIEWS GENETICS

Finding Statistically Significant Communities in Networks

(2011) Andrea Lancichinetti et al.   PLoS One

The Awesome Power of Yeast Evolutionary Genetics: New Genome Sequences and Strain Resources for the Saccharomyces sensu stricto Genus

(2011) Devin R. Scannell et al.   G3-Genes Genomes Genetics

The Neutral Theory of Molecular Evolution in the Genomic Era

(2010) Masatoshi Nei et al.   Annual Review of Genomics and Human Genetics

The Genetic Landscape of a Cell

(2010) M. Costanzo et al.   SCIENCE

Genome-Wide Identification of Saccharomyces cerevisiae Genes Required for Maximal Tolerance to Ethanol

(2009) M. C. Teixeira et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Making the right connections: biological networks in the light of evolution

(2009) Christopher G. Knight et al.   BIOESSAYS

Critical assessment of sequence-based protein-protein interaction prediction methods that do not require homologous protein sequences

(2009) Yungki Park   BMC BIOINFORMATICS

Evolutionary constraints permeate large metabolic networks

(2009) Andreas Wagner   BMC EVOLUTIONARY BIOLOGY

Kinases that control the cell cycle in response to DNA damage: Chk1, Chk2, and MK2

(2009) H Christian Reinhardt et al.   CURRENT OPINION IN CELL BIOLOGY

INDELible: A Flexible Simulator of Biological Sequence Evolution

(2009) W. Fletcher et al.   MOLECULAR BIOLOGY AND EVOLUTION

Evolutionarily Conserved Herpesviral Protein Interaction Networks

(2009) Even Fossum et al.   PLoS Pathogens

Natural selection governs local, but not global, evolutionary gene coexpression networks in Caenorhabditis elegans

(2008) I King Jordan et al.   BMC Systems Biology

Fermentative stress adaptation of hybrids within the Saccharomyces sensu stricto complex

(2008) C BELLOCH   INTERNATIONAL JOURNAL OF FOOD MICROBIOLOGY

eSGA: E. coli synthetic genetic array analysis

(2008) Gareth Butland et al.   NATURE METHODS

An empirical framework for binary interactome mapping

(2008) Kavitha Venkatesan et al.   NATURE METHODS

High-throughput, quantitative analyses of genetic interactions in E. coli

(2008) Athanasios Typas et al.   NATURE METHODS

Global investigation of protein–protein interactions in yeast Saccharomyces cerevisiae using re-occurring short polypeptide sequences

(2008) S. Pitre et al.   NUCLEIC ACIDS RESEARCH

Conservation and Rewiring of Functional Modules Revealed by an Epistasis Map in Fission Yeast

(2008) A. Roguev et al.   SCIENCE