Background and activities
During the last few years, network approaches have shown great promise as new tools to analyze and understand complex systems. In biology, network formulations of a system naturally appear in situations ranging from food webs in ecology to biochemical interactions in molecular biology. In particular in the cell, the variety of interactions between genes, proteins and metabolites are well captured by a complex network description. My research is focused on developing both general and specific methods to understand the principles behind the design and organization of biological systems. Most of the work is theoretical and computational in nature, but I am also involved in smaller experimental efforts.
For the fifth year in a row, NTNU is competing in the international Genetically Engineered Machine competition (iGEM) with a team! Our 2013 team was recently featured on the popular science TV show for NRK (Norwegian Public Broadcasting), Schrödingers Katt.
- General information about the NTNU iGEM participation: http://www.ntnu.edu/centron/igem
- Follow team updates: https://twitter.com/ntnuigem
- 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.
- Wuchty S, Almaas E. 2005. Peeling the yeast protein network. Proteomics 5, 444.
- 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.
Scientific, academic and artistic work
A selection of recent journal publications, artistic productions, books, including book and report excerpts. See all publications in the database
- (2016) Alginate Biosynthesis Factories in Pseudomonas fluorescens : Localization and Correlation with Alginate Production Level. Applied and Environmental Microbiology. vol. 82 (4).
- (2013) Possible sorting mechanism for microparticles in an evanescent field. Physical Review A. Atomic, Molecular, and Optical Physics. vol. 87.
- (2013) s-core network decomposition: A generalization of k-core analysis to weighted networks. Physical Review E. Statistical, Nonlinear, and Soft Matter Physics. vol. 88.
- (2013) Non-Invasive Analysis of Recombinant mRNA Stability in Escherichia coli by a Combination of Transcriptional Inducer Wash-Out and qRT-PCR. PLoS ONE. vol. 8 (6).
- (2012) Genome-level transcription data of Yersinia pestis analyzed with a New metabolic constraint-based approach. BMC Systems Biology. vol. 6 (150).
- (2009) Two-Component Genetic Switch as a Synthetic Module with Tunable Stability. Physical Review Letters. vol. 103 (2).
- (2009) Differences in human and chimpanzee gene expression patterns define an evolving network of transcription factors in brain. Proceedings of the National Academy of Sciences of the United States of America. vol. 106 (52).
Part of book/report
- (2012) Dynamics and robustness of metabolic networks: A systems biology review of Escherichia coli metabolism. Systems Microbiology - Current Topics and Applications.
- (2012) Complex Network Analysis in Microbial Systems: Theory and Examples. Microbial Systems Biology: Methods and Protocols.
- (2010) Evolution of metabolic networks. Evolutionary genomics and systems biology.