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    • Gysi DM, Voigt A, Fragoso TM, Almaas E, Nowick K. wTO: Weighted Topological Overlap Network, an R package. Submitted.
    • Eidsaa M, Stubbs L, Almaas E. Comparative analysis of weighted gene co-expression networks in human and mouse. PLoS One, Accepted.
    • Olaisen C, Kvitvang HF, Lee S, Almaas E, Bruheim P, Drabløs F, Otterlei M. The PCNA-interacting motif APIM is functionally conserved between yeast and human. Submitted.
    • Voigt A, Nowick K, Almaas E. A composite network of conserved and tissue specific gene interactions reveals possible genetic interactions in glioma. PLoS Comput Biol 13, e1005739 (2017). [Link]
    • MacGillivray M, Ko A, Gruber E, Sawyer M, Almaas E, Holder A. Robust analysis of fluxes in genome-scale metabolic pathways. Scientific Reports 7, 268 (2017). [Link]
    • Martyushenko N, Johansen SH, Ghim CM, Almaas E. Hypothetical biomolecular probe based on a genetic switch with tunable symmetry and stability. BMC Syst Biol 10:39 (2016). [Link]
    • Cvijovic M, Hofer T, Acimovic J, Alberghina L, Almaas E, Besozzi D, Blomberg A, et. al. Strategies for structuring interdisciplinary education in Systems Biology: an European perspective. npj Systems Biology and Applications 2, 16011 (2016). [Link]
    • Eidsaa M, Almaas E. Investigating the relationship between k-core and s-core network decompositions. Physica A 449, 111 (2016). [Link]
    • Maleki S, Almaas E, Zotchev S, Valla S, Ertesvåg H. Alginate biosynthesis factories in Pseudomonas fluorescence: localization and correlation with alginate production level. Appl. Env. Microb. 82:4, 1227 (2016). [Link]
    • Ebrahim A, Almaas E, Bauer E, Bordbar A, Burgard AP, Chang RL, Drager A, et. al. Do genome-scale models need exact solvers or clearer standards? Mol. Syst. Biol. 11, 831 (2015). [Link]
    • Kueltz D, Li J, Paguio D, Pham T, Eidsaa M, Almaas E. Population-specific renal proteomes of marine and freshwater three-spined sticklebacks. J Proteomics. 15, S1874 (2015). [Link]
    • Zwick F, Lale R, Lee S, Almaas E, Valla S. Increased plasmid copy number allows better utilization of cell resources. Submitted.
    • M. Eidsaa and E. Almaas. “The s-core network decomposition: A generalization of k-core to weighted networks.” Phys. Rev. E. 88, 062819 (2013). [Link]
    • E. Almaas and I. Brevik. “Possible sorting mechanism for microparticles in an evanescent field.” Phys. Rev A. 87, 063826 (2013). [Link]
    • V. Kucharova, T.A. Strand, E. Almaas, A.E. Naas, T. Brautaset, and S. Valla. “Non-invasive analysis of mRNA decay rates in Escherichia coli by a combination of qRT-PCR and inducer wash-out”. PLoS One 8, e66429 (2013). [Link]
    • A. Navid, and E. Almaas. “Genome-level transcription data of Yersinia pestis analyzed with a new metabolic constraint-based aproach.” BMC Systems Biology 6, 150 (2012). [Link]
    • K. Nowick, T. Gernat, E. Almaas, and L. Stubbs. “Differences in human and chimpanzee gene expression patterns define an evolving network of transcription factors in the brain.” Proc. Natl. Acad. Sci USA. 106, 22358 (2009).  [Link]
    • C.-M. Ghim, and E. Almaas. “Two-component genetic switch as a synthetic module with tunable stability.” Phys. Rev. Lett. 103, 028101 (2009). [Link]
    • A. Navid, and E. Almaas. “Genome-scale reconstruction and analysis of the metabolic network of Yersinia pestis, strain 91001.”  Mol. BioSyst. 5, 368 (2009). [Link]
    • D.-S. Lee, H. Burd, E. Almaas, O. Wiest, A.-L Barabási, Z.N. Oltvai, and V. Kapatral. “Comparative genome-scale metabolic reconstruction and flux balance analysis of multiple Staphylococcus aureus genomes identify novel antimicrobial drug targets.” J. Bacteriol. 191, 4015 (2009).  [Link]
    • C.-M. Ghim, and E. Almaas. “Genetic noise control via protein oligomerization.” BMC Syst. Biol. 2, 94 (2008).  [Link]
    • R. Jin, S. McCallen, C.-C. Liu, E. Almaas, and X. J. Zhou. “Identifying dynamic network modules with temporal and spatial constraints.” Pac. Symp. Biocomput. 14, 203 (2009).  [Link]
    • A.E. Motter, N. Gulbahce, E. Almaas, and A.-L. Barabási.”Predicting synthetic rescues in metabolic networks.” Mol. Syst. Biol. 4, 168 (2008). [Link]
    • C.-M. Ghim, A. Navid, and E. Almaas. “Scale-free networks in contemporary biology.” Biomed. Comp. Rev. 3(4), 31 (2007). [Link]
    • R. Jin, S. McCallen, and E. Almaas. “Trend motif: A graph mining approach for analysis of dynamic complex networks.” Proc. 7th IEEE ICDM, p. 541 (2007). [Link]
    • E. Almaas. “Optimal flux patterns in cellular metabolic networks.” Chaos 17, 026107 (2007). [Link]
    • E. Almaas. “Biological impacts and context of network biology.” J. Exp. Biol. 210, 1548 (2007). [Link]
    • Z. Dezso, E. Almaas, A. Lukacs, B. Racs, I. Szakadat and A.-L. Barabási. “The dynamics of information access on the Web.” Phys. Rev. E 73, 066132 (2006). [Link]
    • E. Almaas, Z.N. Oltvai and A.-L. Barabási. “The activity reaction core and plasticity in metabolic networks.” PLoS Comput. Biol. 1 (7), e68 (2005). [Link]
    • S. Wuchty and E. Almaas. “Evolutionary cores of domain co-occurrence networks.” BMC Evol. Biol. 5, 24 (2005). [Link]
    • E. Almaas, P.L. Krapivsky and S. Redner. “Statistics of weighted treelike networks.” Phys. Rev. E 71, 036124 (2005). [Link]
    • P.J. Macdonald, E. Almaas and A.-L. Barabási. “Minimum spanning trees on weighted scale-free networks.”Europhys. Lett.72, 308 (2005). [Link]
    • S. Wuchty and E. Almaas, “Peeling the yeast protein network.”Proteomics 5, 444 (2005). [Link] [Cover]
    • E. Almaas, B. Kovacs, T. Vicsek, Z.N. Oltvai and A.-L. Barabási. “Global organization of metabolic fluxes in the bacterium Escherichia coli.” Nature 427, 839 (2004). [Link] [Cover]
    • E. Almaas, R.V. Kulkarni and D. Stroud. “Scaling properties of random walks on small-world networks.” Phys. Rev. E 68, 056105 (2003). [Link]
    • E. Almaas and D. Stroud. “Theory of two-dimensional Josephson arrays in a resonant cavity.” Phys. Rev. B 67, 064511 (2003). [Link]
    • Brevik, T.A. Sivertsen and E. Almaas. “Radiation forces on an absorbing micrometer-sized sphere in an evanescent field.” J. Opt. Soc. Am. B 20, 1739 (2003). [Link]
    • E. Almaas, R.V. Kulkarni and D. Stroud. “Characterizing the structure of small-world networks.” Phys. Rev. Lett. 88, 098101 (2002). [Link]
    • E. Almaas and D. Stroud. “Dynamics of a Josephson array in a resonant cavity.” Phys. Rev. B 65, 134502 (2002). [Link]
    • E. Almaas and D. Stroud. “Resonant-cavity-induced phase locking and voltage steps in a Josephson array.” Phys. Rev. B 63, 144522 (2001). [Link]
    • R.V. Kulkarni, E. Almaas, K.D. Fisher and D. Stroud. “Fractional vortices in the XY model with π-bonds.” Phys. Rev. B 62, 12119 (2000). [Link]
    • R.V. Kulkarni, E. Almaas and D. Stroud. “Exact results and scaling properties of small-world networks.” Phys. Rev. E 61, 4268 (2000). [Link]
    • R.V. Kulkarni, E. Almaas and D. Stroud. “Evolutionary dynamics in the Bak-Sneppen model on small-world networks.” cond-mat/9905066. [Link]
    • E. Almaas and I. Brevik. “Radiation forces on a micrometer-sized sphere in an evanescent field”, J. Opt. Soc. Am. B 12, 2429 (1995).  [Link]
    • E. Almaas and T. Brautaset. Syntetisk biologi. Chapter in Mendels arv – Genetikkens æra. D.O. Hessen DO, T. Lie and N.C. Stenseth eds. Gyldendals forlag. Norway 2015.
    • E. Almaas, P. Bruheim, R. Lahle, S. Valla. “Dynamics and Robustness of Metabolic Networks: a Systems Biology Review of Escherichia coli Metabolism” in Systems Microbiology: Current Topics and Applications. B.D. Robertson and B.W. Wren eds. Caister Academic Press, 2012.
    • Z. Zavareh and E. Almaas. “Complex Network Analysis in Microbial Systems: Theory and Examples.” Chapter in Microbial Systems Biology. A. Navid ed, Methods of Molecular Biology Series. Springer Science + Business Media, 2012.
    • A. Navid and E. Almaas. “Metabolism of Yersinia pestis.”   in Yersinia, Systems Biology and Control. E. Carniel and B.J. Hinnebusch eds. Caister Academic Press, 2012.
    • E. Almaas. “Evolution of metabolic networks.” Chapter in Evolutionary genomics and systems biology. Gustavo Caetano-Anolles ed, Wiley & Sons 2010.
    • A. Navid, C.-M. Ghim, A.T. Fenley, S. Yoon, S. Lee, E. Almaas. “Systems biology of microbial communities.” Chapter in Systems Biology. Ivan V. Maly ed, Methods of Molecular Biology Series. Humana Press 2009.
    • E. Almaas, A. Holder and K. Livingstone. “An introduction to systems biology for mathematical programmers.” Chapter inOptimization in Medicine and Biology. Gino J. Lim and Eva K. Lee eds., Auerbach Publications 2008.
    • E. Almaas, A. Vazquez, and A.-L. Barabási. “Scale free networks in biology.” Chapter in Biological networks. F. Kepes ed. World Scientific 2008.
    • E. Almaas and A.-L. Barabási. “Scale-free networks in cell biology.”Chapter in Endothelial Biomedicine. W. Aird, ed. Cambridge University Press 2007.
    • E. Almaas and A.-L. Barabási. “The architecture of complexity: From WWW to cellular metabolism.” Chapter in Dynamics of Complex Interconnected Systems: Networks and Bioprocesses. A.T. Skjeltorp and A.V. Belushkin eds., Springer, 2006.
    • E. Almaas, Z.N. Oltvai and A.-L. Barabási. “Metabolic networks: structure and utilization.”Chapter in Metabolome Analyses: Strategies for Systems Biology, S. Vaidyanathan, G.G. Harrigan and R. Goodacre, eds. Springer Science+Business Media, 2005.
    • E. Almaas and A.-L. Barabási. “Power laws in biological networks.”Chapter in Power laws, scale-free networks and genome biology. E. Koonin, ed. Landes Bioscience, 2005.
    • E. Almaas and D. Stroud. “Theory of Josephson arrays in a resonant cavity.” Chapter in New developments in superconductivity research. R.W. Stevens, ed. Nova Science Publishers, 2003.
    • E. Almaas. “Fanget i nettet. Historien om hvordan alt henger sammen med alt.” Norwegian Public Radio: NRK P2-Akademiet. Presentation in Norwegian. [Podcast]
    • NTNU iGEM team of 2013 on TV: Norwegian Public Broadcasting (NRK) general science program “Schrodinger’s Cat” [TV stream]