Forging new ties between E. coli genes.

Published in Cell

A recent study in Nature (Isalan et al., 2008) has examined the effects of systematically adding new transcriptional interactions in the bacterium Escherichia coli. Surprisingly, the majority of the engineered connections have no effect on growth, and in some cases the new connections enhance fitness. These findings reveal insights into the robustn...

eQED: an efficient method for interpreting eQTL associations using protein networks.

Published in Molecular systems biology

Analysis of expression quantitative trait loci (eQTLs) is an emerging technique in which individuals are genotyped across a panel of genetic markers and, simultaneously, phenotyped using DNA microarrays. Because of the spacing of markers and linkage disequilibrium, each marker may be near many genes making it difficult to finely map which of these ...

Network-based classification of breast cancer metastasis

Published in journal of Molecular Engineering and Systems Biology

Protein Networks and Analysis of Global Gene Expression From DNA to Proteins: The Multiple Levels of Regulation , The Bi...

Data collection and analysis in systems biology

Published in ” Wiley Encyclopedia of Genetics Genomics

Visualization and Integration of Protein Interaction Networks”, in Protein-Protein Interactions Second Edition: A Molecu...

Identification of protein complexes by comparative analysis of yeast and bacterial protein interaction data

Hybridization and Post-Hybridization Washing

Visualization and Integration of Protein-Protein Interactions

Integrating physical and genetic maps: from genomes to interaction networks.

Published in Nature Reviews Genetics

Physical and genetic mapping data have become as important to network biology as they once were to the Human Genome Project. Integrating physical and genetic networks currently faces several challenges: increasing the coverage of each type of network; establishing methods to assemble individual interaction measurements into contiguous pathway model...