Influence of metabolic network structure and function on enzyme evolution (2006)
Vitkup, Dennis, Kharchenko, Peter, Wagner, Andreas
Abstract Background Most studies of molecular evolution are focused on individual genes and proteins. However, understanding the design principles and evolutionary properties of molecular networks...
Identifying metabolic enzymes with multiple types of association evidence (2006)
Kharchenko, Peter, Chen, Lifeng, Freund, Yoav, Vitkup, Dennis, Church, George M
Abstract Background Existing large-scale metabolic models of sequenced organisms commonly include enzymatic functions which can not be attributed to any gene in that organism. Existing computational...
Identifying metabolic enzymes with multiple types of association evidence
Kharchenko, Peter, Chen, Lifeng, Freund, Yoav, Vitkup, Dennis, Church, George M
Identifying metabolic enzymes with multiple types of association evidence
Kharchenko, Peter, Chen, Lifeng, Freund, Yoav, Vitkup, Dennis, Church, George M
Influence of metabolic network structure and function on enzyme evolution
Vitkup, Dennis, Kharchenko, Peter, Wagner, Andreas
An analysis of evolutionary constraints, gene duplication and essentiability in the yeast metabolic network demonstrates that the structure and function of a metabolic network shapes the evolution of...
Expression dynamics of a cellular metabolic network
Kharchenko, Peter, Church, George M, Vitkup, Dennis
Toward the goal of understanding system properties of biological networks, we investigate the global and local regulation of gene expression in the Saccharomyces cerevisiae metabolic network. Our...
Chromosomal periodicity of evolutionarily conserved gene pairs
Wright, Matthew A., Kharchenko, Peter, Church, George M., Segrè, Daniel
Chromosomes are compacted hundreds of times to fit in the cell, packaged into dynamic folds whose structures are largely unknown. Here, we examine patterns in gene locations to infer large-scale...