%0 Journal Article %1 10.1371/journal.pcbi.1000523 %A Peregrín-Alvarez, José M. %A Xiong, Xuejian %A Su, Chong %A Parkinson, John %D 2009 %I Public Library of Science %J PLoS Comput Biol %K PPI ecoli modularity %N 10 %P e1000523 %R 10.1371/journal.pcbi.1000523 %T The Modular Organization of Protein Interactions in <italic>Escherichia coli</italic> %U http://dx.doi.org/10.1371%2Fjournal.pcbi.1000523 %V 5 %X <title>Author Summary</title> <p>Genes and their protein products do not operate in isolation, but form components of highly interconnected biological systems. Identifying the connections between components is therefore critical to understanding how these processes are organized and operate. <italic>E. coli</italic> is the leading model bacterium; however despite its importance in biological and medical discovery, an accurate atlas of these interactions is still lacking. On the other hand, several computational and experimental procedures have been applied on a high-throughput basis to provide collections of interaction data of varying quality and coverage. Using a sophisticated mathematical framework, we have combined and benchmarked these data to create a single, highly reliable set of interactions that encompasses almost 50% of the <italic>E. coli</italic> proteome. Organizing these data on the basis of their interactions, we identify groups of proteins representing functionally coordinated modules such as molecular machines (e.g., the flagellum) and biochemical pathways. Finally through examining the organization of <italic>E. coli</italic> interactions in the context of evolution, we propose a new model of bacterial network evolution that accounts for the integration of foreign genes acquired through horizontal gene transfer mechanisms.</p>

@article{10.1371/journal.pcbi.1000523, abstract = {<title>Author Summary</title> <p>Genes and their protein products do not operate in isolation, but form components of highly interconnected biological systems. Identifying the connections between components is therefore critical to understanding how these processes are organized and operate. <italic>E. coli</italic> is the leading model bacterium; however despite its importance in biological and medical discovery, an accurate atlas of these interactions is still lacking. On the other hand, several computational and experimental procedures have been applied on a high-throughput basis to provide collections of interaction data of varying quality and coverage. Using a sophisticated mathematical framework, we have combined and benchmarked these data to create a single, highly reliable set of interactions that encompasses almost 50% of the <italic>E. coli</italic> proteome. Organizing these data on the basis of their interactions, we identify groups of proteins representing functionally coordinated modules such as molecular machines (e.g., the flagellum) and biochemical pathways. Finally through examining the organization of <italic>E. coli</italic> interactions in the context of evolution, we propose a new model of bacterial network evolution that accounts for the integration of foreign genes acquired through horizontal gene transfer mechanisms.</p> }, added-at = {2009-10-19T04:29:55.000+0200}, author = {Peregrín-Alvarez, José M. and Xiong, Xuejian and Su, Chong and Parkinson, John}, biburl = {https://www.bibsonomy.org/bibtex/238650abb700a24fb481cc975949eaec8/penkib}, doi = {10.1371/journal.pcbi.1000523}, interhash = {074366ddc0ad32a11ffe6441d0f8ae81}, intrahash = {38650abb700a24fb481cc975949eaec8}, journal = {PLoS Comput Biol}, keywords = {PPI ecoli modularity}, month = {10}, number = 10, pages = {e1000523}, publisher = {Public Library of Science}, timestamp = {2009-10-19T04:30:06.000+0200}, title = {The Modular Organization of Protein Interactions in <italic>Escherichia coli</italic>}, url = {http://dx.doi.org/10.1371%2Fjournal.pcbi.1000523}, volume = 5, year = 2009 }