Sergei Maslov

Summary

Affiliation: Brookhaven National Laboratory
Country: USA

Publications

  1. pmc Toolbox model of evolution of prokaryotic metabolic networks and their regulation
    Sergei Maslov
    Department of Condensed Matter Physics and Materials Science, Brookhaven National Laboratory, Upton, NY 11973, USA
    Proc Natl Acad Sci U S A 106:9743-8. 2009
  2. pmc Parameters of proteome evolution from histograms of amino-acid sequence identities of paralogous proteins
    Jacob Bock Axelsen
    Center for Models of Life, Niels Bohr Institute, Blegdamsvej 17, DK 2100 Copenhagen Ø, Denmark
    Biol Direct 2:32. 2007
  3. pmc Detection of the dominant direction of information flow and feedback links in densely interconnected regulatory networks
    Iaroslav Ispolatov
    Ariadne Inc, 9430 Key West Ave, Suite 113 Rockville, MD 20850, USA
    BMC Bioinformatics 9:424. 2008
  4. pmc Automatic pathway building in biological association networks
    Anton Yuryev
    Ariadne Genomics Inc, 9700 Great Seneca Hwy, Suite 113, Rockville, MD 20850, USA
    BMC Bioinformatics 7:171. 2006
  5. ncbi request reprint Specificity and stability in topology of protein networks
    Sergei Maslov
    Department of Physics, Brookhaven National Laboratory, Upton, NY 11973, USA
    Science 296:910-3. 2002
  6. pmc Propagation of large concentration changes in reversible protein-binding networks
    Sergei Maslov
    Department of Condensed Matter Physics and Materials Science, Brookhaven National Laboratory, Upton, NY 11973, USA
    Proc Natl Acad Sci U S A 104:13655-60. 2007
  7. pmc Upstream plasticity and downstream robustness in evolution of molecular networks
    Sergei Maslov
    Department of Physics, Brookhaven National Laboratory, Upton, New York 11973, USA
    BMC Evol Biol 4:9. 2004
  8. ncbi request reprint Computational architecture of the yeast regulatory network
    Sergei Maslov
    Department of Physics, Brookhaven National Laboratory, Upton, NY 11973, USA
    Phys Biol 2:S94-100. 2005
  9. pmc Evolutionary capacitance and control of protein stability in protein-protein interaction networks
    Purushottam D Dixit
    Biology, Brookhaven National Laboratory, Upton, New York, USA
    PLoS Comput Biol 9:e1003023. 2013
  10. pmc Universal distribution of component frequencies in biological and technological systems
    Tin Yau Pang
    Department of Biosciences, Brookhaven National Laboratory, Upton, NY 11973, USA
    Proc Natl Acad Sci U S A 110:6235-9. 2013

Collaborators

Detail Information

Publications19

  1. pmc Toolbox model of evolution of prokaryotic metabolic networks and their regulation
    Sergei Maslov
    Department of Condensed Matter Physics and Materials Science, Brookhaven National Laboratory, Upton, NY 11973, USA
    Proc Natl Acad Sci U S A 106:9743-8. 2009
    ..Thus, our model provides a qualitative explanation for broad distributions of regulon sizes in prokaryotes...
  2. pmc Parameters of proteome evolution from histograms of amino-acid sequence identities of paralogous proteins
    Jacob Bock Axelsen
    Center for Models of Life, Niels Bohr Institute, Blegdamsvej 17, DK 2100 Copenhagen Ø, Denmark
    Biol Direct 2:32. 2007
    ..Indirect information about relative rates and other intrinsic parameters of these three basic processes is contained in the proteome-wide distribution of sequence identities of pairs of paralogous proteins...
  3. pmc Detection of the dominant direction of information flow and feedback links in densely interconnected regulatory networks
    Iaroslav Ispolatov
    Ariadne Inc, 9430 Key West Ave, Suite 113 Rockville, MD 20850, USA
    BMC Bioinformatics 9:424. 2008
    ..The exact solution of this problem requires enumeration of all cycles and combinations of removed links, which, as an NP-hard problem, is computationally prohibitive even for modest-size networks...
  4. pmc Automatic pathway building in biological association networks
    Anton Yuryev
    Ariadne Genomics Inc, 9700 Great Seneca Hwy, Suite 113, Rockville, MD 20850, USA
    BMC Bioinformatics 7:171. 2006
    ..Most of these techniques suffer from high false positive rates and redundancy of the extracted information. The extracted facts form a large network with no pathways defined...
  5. ncbi request reprint Specificity and stability in topology of protein networks
    Sergei Maslov
    Department of Physics, Brookhaven National Laboratory, Upton, NY 11973, USA
    Science 296:910-3. 2002
    ..This effect decreases the likelihood of cross talk between different functional modules of the cell and increases the overall robustness of a network by localizing effects of deleterious perturbations...
  6. pmc Propagation of large concentration changes in reversible protein-binding networks
    Sergei Maslov
    Department of Condensed Matter Physics and Materials Science, Brookhaven National Laboratory, Upton, NY 11973, USA
    Proc Natl Acad Sci U S A 104:13655-60. 2007
    ..Such "action-at-a-distance" requires high concentrations of heterodimers along the path as well as low free (unbound) concentration of intermediate proteins...
  7. pmc Upstream plasticity and downstream robustness in evolution of molecular networks
    Sergei Maslov
    Department of Physics, Brookhaven National Laboratory, Upton, New York 11973, USA
    BMC Evol Biol 4:9. 2004
    ..Recent species-wide data for protein-protein interactions and transcriptional regulations allow us to assess the effect of gene duplication on robustness and plasticity of these molecular networks...
  8. ncbi request reprint Computational architecture of the yeast regulatory network
    Sergei Maslov
    Department of Physics, Brookhaven National Laboratory, Upton, NY 11973, USA
    Phys Biol 2:S94-100. 2005
    ..It was found that in the yeast regulatory network highly connected proteins are in fact less important than their low-connected counterparts...
  9. pmc Evolutionary capacitance and control of protein stability in protein-protein interaction networks
    Purushottam D Dixit
    Biology, Brookhaven National Laboratory, Upton, New York, USA
    PLoS Comput Biol 9:e1003023. 2013
    ..We conclude by outlining clear biophysical experiments to test our predictions...
  10. pmc Universal distribution of component frequencies in biological and technological systems
    Tin Yau Pang
    Department of Biosciences, Brookhaven National Laboratory, Upton, NY 11973, USA
    Proc Natl Acad Sci U S A 110:6235-9. 2013
    ..The observed frequency/dependency degree distributions are reproduced in a simple mathematically tractable model introduced and analyzed in this study...
  11. ncbi request reprint Detection of topological patterns in protein networks
    Sergei Maslov
    Department of Physics, Brookhaven National Laboratory, Upton, New York 11973, USA
    Genet Eng (N Y) 26:33-47. 2004
  12. pmc UV-induced mutagenesis in Escherichia coli SOS response: a quantitative model
    Sandeep Krishna
    Niels Bohr Institute, University of Copenhagen, Copenhagen, Denmark
    PLoS Comput Biol 3:e41. 2007
    ..In particular, we suggest that the recently observed second peak in the activity of promoters in the SOS regulon (Friedman et al., 2005, PLoS Biology 3(7): e238) is the result of positive feedback from Pol V to RecA filaments...
  13. doi request reprint Understanding the differences between genome sequences of Escherichia coli B strains REL606 and BL21(DE3) and comparison of the E. coli B and K-12 genomes
    F William Studier
    Biology Department, Brookhaven National Laboratory, PO Box 5000, Upton, NY 11973 5000, USA
    J Mol Biol 394:653-80. 2009
    ..Complex deletions (dense clusters of small deletions and substitutions) apparently removed nonessential genes from approximately 30 sites in the basic genomes...
  14. pmc A toolbox model of evolution of metabolic pathways on networks of arbitrary topology
    Tin Yau Pang
    Department of Condensed Matter Physics and Materials Science, Brookhaven National Laboratory, Upton, New York, United States of America
    PLoS Comput Biol 7:e1001137. 2011
    ..They also demonstrate why, in spite of "small-world" topology, real-life metabolic networks are characterized by a broad distribution of pathway lengths and sizes of metabolic regulons in regulatory networks...
  15. ncbi request reprint Modularity and extreme edges of the internet
    Kasper Astrup Eriksen
    The Nordic Institute for Theoretical Physics NORDITA, Blegdamsvej 17, DK 2100 Copenhagen Ø, Denmark
    Phys Rev Lett 90:148701. 2003
    ..For the 100 slowest decaying modes of the Internet this fraction is approximately 30%. Finally, we suggest that the degree of isolation of an individual module can be assessed by comparing its participation in different diffusion modes...
  16. doi request reprint Promise and pitfalls of extending Google's PageRank algorithm to citation networks
    Sergei Maslov
    Department of Condensed Matter Physics and Materials Science, Brookhaven National Laboratory, Upton, New York 11973, USA
    J Neurosci 28:11103-5. 2008
  17. pmc Constraints imposed by non-functional protein-protein interactions on gene expression and proteome size
    Jingshan Zhang
    Department of Chemistry and Chemical Biology, Harvard University, Cambridge, MA 02138, USA
    Mol Syst Biol 4:210. 2008
    ..These findings have implication for conceptual understanding of intracellular compartmentalization, multicellularity and differentiation...
  18. pmc Binding properties and evolution of homodimers in protein-protein interaction networks
    Iaroslav Ispolatov
    Ariadne Genomics Inc 9700 Great Seneca Highway, Suite 113, Rockville, MD 20850, USA
    Nucleic Acids Res 33:3629-35. 2005
    ..We finally discuss possible implications of our empirical observations from functional and evolutionary standpoints...
  19. ncbi request reprint Protein interaction networks beyond artifacts
    Sergei Maslov
    FEBS Lett 530:255-6. 2002