Kim Sneppen

Research output

Research output per year 1991 2002 2004 2005 2006 2007 2008 2009 2010 2011 2012 2016 2019

• 168 Journal article
• 4 Conference article
• 3 Book
• 1 Report
• 3 More
  • 1 Book chapter
  • 1 Comment/debate
  • 1 Review

Research output per year

Research output per year

Search results

• 2012

  Axelrod model: accepting or discussing

  Dybiec, B. M., Mitarai, N. & Sneppen, K., 1 Oct 2012, In: European Physical Journal B. Condensed Matter and Complex Systems. 85, 10, p. 357

  Research output: Contribution to journal › Journal article › Research › peer-review

  • interactions 100%
  4 Citations (Scopus)

• Clonal selection prevents tragedy of the commons when neighbors compete in a rock-paper-scissors game

  Juul, J. S., Sneppen, K. & Mathiesen, J., 26 Jun 2012, In: Physical Review E (Statistical, Nonlinear, and Soft Matter Physics). 85, 6, p. 061924 4 p.

  Research output: Contribution to journal › Journal article › Research › peer-review

  • Clonal Selection 100%
  • games 68%
  • rocks 53%
  • ecosystems 51%
  • Game 44%
  22 Citations (Scopus)

• Coexistence of phage and bacteria on the boundary of self-organized refuges

  Heilmann, S., Sneppen, K. & Krishna, S., 31 Jul 2012, In: Proceedings of the National Academy of Sciences of the United States of America. 109, 31, p. 12828-33 6 p.

  Research output: Contribution to journal › Journal article › Research › peer-review

  • Bacteriophages 100%
  • Bacteria 68%
  • Ecosystem 30%
  • Quorum Sensing 11%
  • Population Density 10%

• Coexistence of phage and bacteria on the boundary of self-organized refuges

  Heilmann, S., Sneppen, K. & Krishna, S., 31 Jul 2012, In: Proceedings of the National Academy of Science of the United States of America. 109, 31, p. 12828-12833

  Research output: Contribution to journal › Journal article › Research › peer-review

  • Bacteriophages 100%
  • Bacteria 68%
  • Ecosystem 30%
  • Quorum Sensing 11%
  • Population Density 10%
  62 Citations (Scopus)

• Conditional Cooperativity in Toxin-Antitoxin Regulation Prevents Random Toxin Activation and Promotes Fast Translational Recovery

  Cataudella, I., Trusina, A., Sneppen, K., Gerdes, K. & Mitarai, N., Aug 2012, In: Nucleic Acids Research. 40, 14, p. 6424-6434

  Research output: Contribution to journal › Journal article › Research › peer-review

  • Antitoxins 100%
  • Explosions 44%
  • Starvation 38%
  • Theoretical Models 29%
  • Escherichia coli 25%
  59 Citations (Scopus)

• Correction to; Why Do Phage Play Dice? (vol 83, pg 11416, 2009)

  Avlund, M., Dodd, I. B., Semsey, S., Sneppen, K. & Krishna, S., 1 Mar 2012, In: Journal of Virology. 86, 5, p. 22898-2898 1 p.

  Research output: Contribution to journal › Comment/debate › Research › peer-review

  1 Citation (Scopus)

• Danske Universiteter 2020: Hvidbog til Forskningspolitisk årsmøde 2012, Det Kongelige Danske Videnskabernes Selskab

  Bache, C., Christiansen, F. B., Løkke, A., Smith, N. & Sneppen, K., 2012, Det Kongelige Danske Videnskabernes Selskab. 50 p.

  Research output: Book/Report › Report › Commissioned

• Emergence of diversity in a model ecosystem

  Mitarai, N., Mathiesen, J. & Sneppen, K., 30 Jul 2012, In: Physical Review E. Statistical, Nonlinear, and Soft Matter Physics. 86, 1, p. 011929 6 p.

  Research output: Contribution to journal › Journal article › Research › peer-review

  • ecosystems 100%
  • Ecosystem 92%
  • organisms 39%
  • Bistable System 27%
  • Metapopulation 25%
  13 Citations (Scopus)

• Information spreading and development of cultural centers

  Dybiec, B. M., Mitarai, N. & Sneppen, K., 18 May 2012, In: Physical Review E. Statistical, Nonlinear, and Soft Matter Physics. 85, 5, p. 056116 7 p.

  Research output: Contribution to journal › Journal article › Research › peer-review

  • Culture 100%
  • Maintenance 93%
  • maintenance 63%
  • Religion 63%
  • remote regions 50%
  10 Citations (Scopus)

• Multistability with a Metastable Mixed State

  Sneppen, K. & Mitarai, N., 5 Sept 2012, In: Physical Review Letters. 109, 10, p. 100602 5 p.

  Research output: Contribution to journal › Journal article › Research › peer-review

  • molecular biology 100%
  • metastable state 70%
  • dynamical systems 68%
  • time measurement 54%
  21 Citations (Scopus)

• Protein Localization with Flexible DNA or RNA

  Bernhardsson, P. J. S., Mitarai, N. & Sneppen, K., 10 Feb 2012, In: PLoS.ONE.. 7, 2, p. e29218

  Research output: Contribution to journal › Journal article › Research › peer-review

  • RNA 100%
  • Protein 86%
  • DNA 85%
  • Proteins 75%
  • protein 59%

• Spatial Structure and Lamarckian Adaptation Explain Extreme Genetic Diversity at CRISPR Locus

  Härter, J. O. M. & Sneppen, K., 1 Aug 2012, In: mBio. 3, 4, p. e00126

  Research output: Contribution to journal › Journal article › Research › peer-review

  • Clustered Regularly Interspaced Short Palindromic Repeats 100%
  • Genetic Variation 84%
  • Bacteriophages 57%
  • Immunity 47%
  • Bacteria 19%
  34 Citations (Scopus)

• Specific contacts of the -35 region of the galP1 promoter by RNA polymerase inhibit GalR-mediated DNA looping repression

  Csiszovszki, Z., Lewis, D. E. A., Le, P., Sneppen, K. & Semsey, S., 1 Nov 2012, In: Nucleic Acids Research. 40, 20, p. 10064-10072 8 p.

  Research output: Contribution to journal › Journal article › Research › peer-review

  • DNA-Directed RNA Polymerases 100%
  • Genetic Promoter Regions 86%
  • Chromosome Structures 64%
  • DNA 50%
  • Galactose 49%
  2 Citations (Scopus)

• Spreading of multiple epidemics with cross immunization

  Uekermann, F. & Sneppen, K., 13 Sept 2012, In: Physical Review E (Statistical, Nonlinear, and Soft Matter Physics). 86, 3, Part 2, p. 036108 6 p.

  Research output: Contribution to journal › Journal article › Research › peer-review

  • Immunization 100%
  • pathogens 97%
  • Immune System 91%
  • immune systems 51%
  • Evolutionary Tree 50%
  10 Citations (Scopus)
• 2011

  Barriers and Silencers: A Theoretical Toolkit for Control and Containment of Nucleosome-Based Epigenetic States

  Dodd, I. B. & Sneppen, K., 9 Dec 2011, In: Journal of Molecular Biology. 414, 4, p. 624-637

  Research output: Contribution to journal › Journal article › Research › peer-review

  • Nucleosomes 100%
  • Epigenomics 74%
  • Chromatin 37%
  • Transcriptional Silencer Elements 21%
  • Enzymes 15%
  27 Citations (Scopus)

• Direct and indirect effects in the regulation of overlapping promoters

  Bendtsen, K. M., Erdossy, J., Csiszovski, Z., Svenningsen, S. L., Sneppen, K., Krishna, S. & Semsey, S., Sept 2011, In: Nucleic Acids Research. 39, 16, p. 6879-6885 7 p.

  Research output: Contribution to journal › Journal article › Research › peer-review

  • DNA-Binding Proteins 100%
  • Nucleic Acid Regulatory Sequences 34%
  • DNA-Directed RNA Polymerases 33%
  • Gene Expression Regulation 32%
  • Genetic Promoter Regions 28%
  22 Citations (Scopus)

  2271 Downloads (Pure)

• Ecosystems with Mutually Exclusive Interactions Self-Organize to a State of High Diversity

  Mathiesen, J., Mitarai, N., Sneppen, K. & Trusina, A., 25 Oct 2011, In: Physical Review Letters. 107, 18, p. 188101

  Research output: Contribution to journal › Journal article › Research › peer-review

  • ecosystems 100%
  • lichens 64%
  • organisms 39%
  • interactions 28%
  • requirements 24%
  36 Citations (Scopus)

• Emergence and decline of scientific paradigms

  Bornholdt, S., Jensen, M. H. & Sneppen, K., 2 Feb 2011, In: Physical Review Letters. 106, 5, p. 058701 4 p.

  Research output: Contribution to journal › Journal article › Research › peer-review

  28 Citations (Scopus)

• Key players in the genetic switch of bacteriophage TP901-1.

  Alsing, A., Pedersen, M., Sneppen, K. & Hammer, K., 19 Jan 2011, In: Biophysical Journal. 100, 2, p. 313-321 8 p.

  Research output: Contribution to journal › Journal article › Research › peer-review

  7 Citations (Scopus)

• Locally self-organized quasicritical percolation in a multiple-disease model

  Juul, J. S. & Sneppen, K., 30 Sept 2011, In: Physical Review E (Statistical, Nonlinear, and Soft Matter Physics). 84, 3, p. 0036119 4 p.

  Research output: Contribution to journal › Journal article › Research › peer-review

  • Mutual Exclusion 100%
  • pathogens 95%
  • Model 89%
  • Immunity 82%
  • immunity 79%
  3 Citations (Scopus)

• Modeling the spatial dynamics of culture spreading in the presence of cultural strongholds

  Lizana, G. L., Mitarai, N. & Sneppen, K., 28 Jun 2011, In: Physical Review E (Statistical, Nonlinear, and Soft Matter Physics). 83, 6, p. 066116 5 p.

  Research output: Contribution to journal › Journal article › Research › peer-review

  • geography 100%
  • Culture 74%
  • Geography 56%
  • linguistics 43%
  • information flow 42%
  16 Citations (Scopus)

• Targeted bacterial immunity buffres phage diversity

  Härter, J. O. M., Trusina, A. & Sneppen, K., Oct 2011, In: Journal of Virology. 85, 20, p. 10554-10560 6 p.

  Research output: Contribution to journal › Journal article › Research › peer-review

  • Clustered Regularly Interspaced Short Palindromic Repeats 100%
  • Bacteriophages 86%
  • phages 80%
  • Defense Mechanisms 77%
  • immunity 76%
  27 Citations (Scopus)

• The functional half-life of an mRNA depends on the ribosome spacing in an early coding region

  Pedersen, M., Nissen, S., Mitarai, N., Lo Svenningsen, S., Sneppen, K. & Pedersen, S., 18 Mar 2011, In: Journal of Molecular Biology. 407, 1, p. 35-44 10 p.

  Research output: Contribution to journal › Journal article › Research › peer-review

  • Ribosomes 100%
  • Half-Life 85%
  • Messenger RNA 54%
  • Codon 47%
  • RNA Stability 8%
  20 Citations (Scopus)

  1534 Downloads (Pure)
• 2010

  A minimal model for multiple epidemics and immunity spreading

  Sneppen, K., Trusina, A., Jensen, M. H. & Bornholdt, S., 18 Oct 2010, In: PLoS ONE. 5, 10, p. e13326

  Research output: Contribution to journal › Journal article › Research › peer-review

  • immunity 100%
  • Immunity 98%
  • Minimal Model 95%
  • Epidemics 70%
  • Immunization 48%
  23 Citations (Scopus)

  793 Downloads (Pure)

• Economy of operon formation: cotranscription minimizes shortfall in protein complexes

  Sneppen, K., Pedersen, S., Krishna, S., Dodd, I. B. & Semsey, S., 21 Sept 2010, In: Microbe. 1, 4, p. e00177-10

  Research output: Contribution to journal › Journal article › Research › peer-review

  • Operon 100%
  • Proteins 33%
  • Archaea 22%
  • Eukaryotic Cells 19%
  • Noise 16%
  18 Citations (Scopus)

• Minimal gene regulatory circuits for a lysis-lysogeny choice in the presence of noise

  Avlund, M., Krishna, S., Semsey, S., Dodd, I. B. & Sneppen, K., 20 Dec 2010, In: PLoS ONE. 5, 12, p. 0015037 7 p.

  Research output: Contribution to journal › Journal article › Research › peer-review

  • Lysogeny 100%
  • lysogeny 90%
  • lysis 75%
  • gene regulatory networks 69%
  • Gene Regulatory Networks 67%
  12 Citations (Scopus)

  570 Downloads (Pure)

• Organizational structure and communication networks in a university environment

  Mathiesen, J., Jamtveit, B. & Sneppen, K., 2 Jul 2010, In: Physical Review E (Statistical, Nonlinear, and Soft Matter Physics). 82, 1, p. 016104 4 p.

  Research output: Contribution to journal › Journal article › Research › peer-review

  • communication networks 100%
  • Universities 93%
  • Communication Networks 92%
  • messages 68%
  • modules 63%
  2 Citations (Scopus)

• Simplified models of biological networks

  Sneppen, K., Krishna, S. & Semsey, S., 9 Jun 2010, In: Annual Review of Biophysics and Biomolecular Structure. 9, 39, p. 43-59 16 p.

  Research output: Contribution to journal › Journal article › Research › peer-review

  • Biological Models 100%
  • Epigenomics 64%
  • Homeostasis 54%
  • Feedback 46%
  • Cells 36%
  66 Citations (Scopus)

• Structural correlations in bacterial metabolic networks

  Gerlee, P. D. M., Bernhardsson, P. J. S., Lizana, G. L. & Sneppen, K., 1 Jun 2010, In: FEBS Journal. 277, Suppl. 1, p. 114-114 1 p.

  Research output: Contribution to journal › Journal article › Research

• Sustainability of Virulence in a Phage-Bacterial Ecosystem

  Heilmann, S., Sneppen, K. & Krishna, S., 1 Mar 2010, In: Journal of Virology. 84, 6, p. 3016-3022 6 p.

  Research output: Contribution to journal › Journal article › Research › peer-review

  • Ecosystem 100%
  • Bacteriophages 89%
  • phages 83%
  • Virulence 78%
  • virulence 72%
  36 Citations (Scopus)

• Theory for the stability and regulation of epigenetic landscapes

  Micheelsen, M. A., Mitarai, N., Sneppen, K. & Dodd, I. B., 4 Jun 2010, In: Physical Biology. 7, 2, p. 026010 8 p.

  Research output: Contribution to journal › Journal article › Research › peer-review

  • Cell Division 100%
  • Epigenomics 91%
  • Nucleosomes 61%
  • Eukaryotic Cells 56%
  • Phenotype 31%
  39 Citations (Scopus)

• Time walkers and spatial dynamics of ageing information

  Lizana, G. L., Rosvall, M. & Sneppen, K., 29 Jan 2010, In: Physical Review Letters. 104, 4, p. 040603 4 p.

  Research output: Contribution to journal › Journal article › Research › peer-review

  • rivers 100%
  • decay 43%
  7 Citations (Scopus)
• 2009

  Dominant negative autoregulation limits steady-state repression levels in gene networks

  Semsey, S., Krishna, S., Erdossy, J., Horváth, P., Orosz, L., Sneppen, K. & Adhya, S., Jul 2009, In: Journal of Bacteriology. 191, 14, p. 4487-91 5 p.

  Research output: Contribution to journal › Journal article › Research › peer-review

  • Gene Regulatory Networks 100%
  • Homeostasis 67%
  • Transcription Factors 46%
  • Genes 37%
  • Proteins 33%
  16 Citations (Scopus)

• Dominant negative autoregulation limits steady-state repression levels in gene networks

  Semsey, S., Krishna, S., Erdossy, J., Horvath, P., Orosz, L., Sneppen, K. & Adhya, S., 2009, In: Journal of Bacteriology. 191, 14, p. 4487-4491 5 p.

  Research output: Contribution to journal › Journal article › Research › peer-review

  16 Citations (Scopus)

• Dynamic features of gene expression control by small regulatory RNAs

  Mitarai, N., Benjamin, J-A. M., Krishna, S., Semsey, S., Csiszovszki, Z., Massé, E. & Sneppen, K., 30 Jun 2009, In: Proceedings of the National Academy of Sciences of the United States of America. 106, 26, p. 10655-9 5 p.

  Research output: Contribution to journal › Journal article › Research › peer-review

  • RNA 100%
  • Gene Expression 86%
  • Messenger RNA 54%
  • RNA Stability 26%
  • Gene Expression Regulation 25%
  55 Citations (Scopus)

• Dynamic features of gene expression control by small regulatory RNAs

  Mitarai, N., Bemjamin, JAM., Krishna, S., Semsey, S., Csiszovszki, Z., Masse, E. & Sneppen, K., 2009, In: Proceedings of the National Academy of Science of the United States of America. 106, 26, p. 10655-10659 4 p.

  Research output: Contribution to journal › Journal article › Research › peer-review

  55 Citations (Scopus)

• Dynamics of the recovery from sRNA-mediated gene silencing

  Semsey, S., Bemjamin, JAM., Mitarai, N., Krishna, S., Csiszovszki, Z., Sneppen, K. & Masse, E., 2009, In: Cell Cycle. 8, 18, p. 2863-2864 1 p.

  Research output: Contribution to journal › Journal article › Research › peer-review

• Dynamics of uptake and metabolism of small molecules in cellular response systems

  Werner, M., Semsey, S., Sneppen, K. & Krishna, S., 2009, In: PLoS ONE. 4, 3, p. e4923

  Research output: Contribution to journal › Journal article › Research › peer-review

  4 Citations (Scopus)

  262 Downloads (Pure)

• Dynamics of uptake and metabolism of small molecules in cellular response systems

  Werner, M., Semsey, S., Sneppen, K. & Krishna, S., 2009, In: P L o S One. 4, 3, p. e4923

  Research output: Contribution to journal › Journal article › Research › peer-review

  • Metabolism 100%
  • feedback loop 92%
  • Molecules 72%
  • metabolism 62%
  • regulation 52%
  4 Citations (Scopus)

• Minimal Gene Regulatory Circuits that Can Count like Bacteriophage Lambda

  Avlund, M., Dodd, I. B., Sneppen, K. & Krishna, S., 11 Dec 2009, In: Journal of Molecular Biology. 394, 4, p. 681-693

  Research output: Contribution to journal › Journal article › Research › peer-review

  8 Citations (Scopus)

• Modeling of the genetic switch of bacteriophage TP901-1: a heteromer of CI and MOR ensures robust bistability

  Hiizu, N., Pedersen, M., Alsing, A. & Sneppen, K., 2009, In: Journal of Molecular Biology. 394, p. 15-28 13 p.

  Research output: Contribution to journal › Journal article › Research › peer-review

  7 Citations (Scopus)

• Modeling proteasome dynamics in Parkinson's disease

  Sneppen, K., Lizana, G. L., Jensen, M. H., Pigolotti, S. & Otzen, D., 2009, In: Physical Biology. 6, 3, p. 036005

  Research output: Contribution to journal › Journal article › Research › peer-review

  17 Citations (Scopus)

• Pathway identification by network pruning in the metabolic network of Escherichia coli

  Gerlee, P. D. M., Lizana, G. L. & Sneppen, K., 2009, In: Bioinformatics. 25, 24, p. 3282-3288 6 p.

  Research output: Contribution to journal › Journal article › Research › peer-review

  28 Citations (Scopus)

• Reinforced communication and social navigation generate groups in model networks

  Rosvall, M. & Sneppen, K., 2009, In: Physical Review E (Statistical, Nonlinear, and Soft Matter Physics). 79, 2, Part 2, p. 026111

  Research output: Contribution to journal › Journal article › Research › peer-review

  22 Citations (Scopus)

• Relation of intracellular signal levels and promoter activities in the gal regulon of escherichia coli

  Krishna, S., Orosz, L., Sneppen, K., Sankar, A. & Szabolcs, S., 2009, In: Journal of Molecular Biology. 391, 4, p. 671-678 8 p.

  Research output: Contribution to journal › Journal article › Research › peer-review

  17 Citations (Scopus)

• Relation of intracellular signal levels and promoter activities in the gal regulon of Escherichia coli

  Krishna, S., Orosz, L., Sneppen, K., Adhya, S. & Semsey, S., 28 Aug 2009, In: Journal of Molecular Biology. 391, 4, p. 671-8 8 p.

  Research output: Contribution to journal › Journal article › Research › peer-review

  • Regulon 100%
  • Nucleic Acid Regulatory Sequences 87%
  • Galactose 83%
  • Operon 83%
  • Metabolic Networks and Pathways 76%
  17 Citations (Scopus)

• Toolbox model of evolution of prokaryotic metabolic networks and their regulation

  Maslov, S., Krishna, S., Pang, T. Y. & Sneppen, K., 2009, In: Proceedings of the National Academy of Science of the United States of America. 24, p. 9743-9748 5 p.

  Research output: Contribution to journal › Conference article › Research › peer-review

  79 Citations (Scopus)

• Why do phage play dice?

  Avlund, M., Dodd, I. B., Semsey, S., Sneppen, K. & Krishna, S., Nov 2009, In: Journal of Virology. 83, 22, p. 11416-20 5 p.

  Research output: Contribution to journal › Journal article › Research › peer-review

  • Bacteriophages 100%
  • phages 93%
  • Bacteriophage lambda 29%
  • Infections 19%
  • infection 17%
  33 Citations (Scopus)

• Why do phage play dice?

  Avlund, M., Dodd, I. B., Semsey, S., Sneppen, K. & Krishna, S., 2009, In: Journal of Virology. 83, 22, p. 11416-11420 4 p.

  Research output: Contribution to journal › Journal article › Research › peer-review

  33 Citations (Scopus)
• 2008

  Dynamical analysis on gene activity in the presence of repressors and an interfering promoter

  Nakanishi, H., Mitarai, N. & Sneppen, K., 1 Nov 2008, In: Biophysical Journal. 95, 9, p. 4228-4240

  Research output: Contribution to journal › Journal article › Research › peer-review

  11 Citations (Scopus)