Network Biology

Our group is conducting basic research in systems biology, focusing on complex biological networks, epidemiological spread and cellular metabolism by using both computational and experimental approaches. We engage in applied research, specifically in finding alternatives to antibiotics through experimental bacteriophage evolution, and in the analysis of the interaction between yeast and nutrients in beer brewing. For more details, see the group page.

Selected publications

• Almaas E, Kulkarni RV, Stroud D. 2002. Characterizing the structure of small-world networks. Phys. Rev. Lett. 88, 098101.
• Almaas E, Kovacs B, Vicsek T, Oltvai ZN, Barabasi AL. 2004. Global organization of metabolic fluxes in the bacterium Escherichia coli. Nature 427, 839.
• Almaas E. 2007. Biological impacts and context of network biology. J. Exp. Biol. 210, 1548.
• Motter AE, Gulbahce N, Almaas E, Barabasi AL. 2008.Predicting synthetic rescues in metabolic networks. Mol. Syst. Biol. 4, 168.
• Ghim CM, Almaas E. 2009. Two component genetic switch as a synthetic module with tunable stability. Phys. Rev. Lett. 103, 028101.
• Nowick K, Gernat T, Almaas E, Stubbs L. 2009. Differences in human and chimpanzee gene expression patterns define an evolving network of transcription factors in brain. Proc Natl Acad Sci 106, 22358.
• Navid A, Almaas E. (2012). Genome-level transcription data of Yersinia pestis analyzed with a new metabolic constraint-based aproach. BMC Systems Biology 6, 150.
• MacGillivray M, Ko A, Gruber E, Sawyer M, Almaas E, Holder A. (2017). Robust analysis of fluxes in genome-scale metabolic pathways. Scientific Reports 7, 268.