Namiko Mitarai

Namiko Mitarai

Associate Professor

ORCID: 0000-0003-0116-7606

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  1. Published

    A growing microcolony can survive and support persistent propagation of virulent phages

    Eriksen, R. S., Svenningsen, Sine Lo, Sneppen, Kim & Mitarai, Namiko, 1 Jan 2018, In: Proceedings of the National Academy of Sciences USA (PNAS). 115, 2, p. 337-342

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

  2. Published

    A scaling law of multilevel evolution: how the balance between within- and among-collective evolution is determined

    Takeuchi, N., Mitarai, Namiko & Kaneko, Kunihiko, 4 Feb 2022, In: Genetics. 220, 2, 9 p., 182.

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

  3. Published

    Anomalous fluctuations in sliding motion of cytoskeletal filaments driven by molecular motors: Model simulations

    Imafuku, Y., Mitarai, Namiko, Tawada, K. & Nakanishi, H., 7 Feb 2008, In: Journal of Physical Chemistry Part B: Condensed Matter, Materials, Surfaces, Interfaces & Biophysical. 112, 5, p. 1487-1493

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

  4. Published

    Axelrod model: accepting or discussing

    Dybiec, B. M., Mitarai, Namiko & Sneppen, Kim, 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

  5. Published

    Bagnold scaling, density plateau, and kinetic theory analysis of dense granular flow

    Mitarai, Namiko & Nakanishi, H., 1 Apr 2005, In: Physical Review Letters. 94, 12, p. 128001 4 p.

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

  6. Published

    Bifurcation of transition paths induced by coupled bistable systems

    Tian, C. & Mitarai, Namiko, 7 Jun 2016, In: The Journal of Chemical Physics. 144, 21, 215102.

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

  7. Published

    Birth and Resuscitation of (p)ppGpp Induced Antibiotic Tolerant Persister Cells

    Svenningsen, Mikkel Skjoldan, Veress, A., Harms, A., Mitarai, Namiko & Semsey, S., 15 Apr 2019, In: Scientific Reports. 9, 13 p., 6056.

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

  8. Published

    Broad distribution of stick-slip events in slowly sheared granular media: Table-top production of a Gutenberg-Richter-like distribution

    Bretz, M., Zaretzki, R., Field, S., Mitarai, Namiko & Nori, F., 2 Jun 2006, In: EPL. 74, 6, p. 1116-1122

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

  9. Published

    Characterization of phase transitions in a model ecosystem of sessile species

    Uekermann, F., Mathiesen, Joachim & Mitarai, Namiko, 13 Mar 2017, In: Physical Review E. 95, 3, 032409.

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

  10. Published

    Circuit architecture explains functional similarity of bacterial heat shock responses

    Masayo, I., Mitarai, Namiko & Trusina, Ala, 1 Dec 2012, In: Physical Biology. 9, 6, p. 066003

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

  11. Published

    Collisional granular flow as a micropolar fluid

    Mitarai, Namiko, Hayakawa, H. & Nakanishi, H., 29 Apr 2002, In: Physical Review Letters. 88, 17, 174301.

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

  12. Published

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

    Cataudella, I., Trusina, Ala, Sneppen, Kim, Gerdes, K. & Mitarai, Namiko, 11 Apr 2012, In: Nucleic Acids Research. 40, 14, p. 6424-6434

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

  13. Published

    Conditional Cooperativity of Toxin - Antitoxin Regulation Can Mediate Bistability between Growth and Dormancy

    Cataudella, I., Sneppen, Kim, Gerdes, K. & Mitarai, Namiko, 1 Aug 2013, In: PLoS Computational Biology. 9, 8, e1003174.

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

  14. Published

    Control of ribosome traffic by position-dependent choice of synonymous codons

    Mitarai, Namiko & Pedersen, Steen, 8 Oct 2013, In: Physical Biology. 10, 5, 056011.

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

  15. Published

    Convective instability and structure formation in traffic flow

    Mitarai, Namiko & Nakanishi, H., 2 Nov 2000, In: Journal of the Physical Society of Japan. 69, 11, p. 3752-3761

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

  16. Published

    Coupled positive and negative feedbacks produce diverse gene expression patterns in colonies

    Mitarai, Namiko, Jensen, Mogens Høgh & Semsey, S., 7 Apr 2015, In: mBio (Print). 6, 2, e00059-15 .

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

  17. Published

    Deterministic extinction by mixing in cyclically competing species

    Feldager, C. W., Mitarai, Namiko & Ohta, H., 20 Mar 2017, In: Physical Review E. 95, 3, 032318.

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

  18. Published

    Distinct Survival, Growth Lag, and rRNA Degradation Kinetics during Long-Term Starvation for Carbon or Phosphate

    Himeoka, Y., Gummesson, Bertil, Sørensen, Michael Askvad, Svenningsen, Sine Lo & Mitarai, Namiko, 20 Apr 2022, In: mSphere. 7, 3, 12 p., e01006-21.

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

  19. Published

    Disturbance accelerates the transition from low- to high-diversity state in a model ecosystem

    Botta, F. & Mitarai, Namiko, 4 Feb 2014, In: Physical Review E (Statistical, Nonlinear, and Soft Matter Physics). 89, 2, 022704.

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

  20. Published

    Dynamic Modeling of Indole Glucosinolate Hydrolysis and Its Impact on Auxin Signaling

    Vik, D., Mitarai, Namiko, Wulff, N., Halkier, Barbara Ann & Burow, Meike, 2018, In: Frontiers in Plant Science. 9, 16 p., 550.

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

  21. Published

    Dynamic competition between transcription initiation and repression: Role of nonequilibrium steps in cell-to-cell heterogeneity

    Mitarai, Namiko, Semsey, S. & Sneppen, Kim, 13 Aug 2015, In: Physical Review E (Statistical, Nonlinear, and Soft Matter Physics). 92, 2, 022710.

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

  22. Published

    Dynamic features of gene expression control by small regulatory RNAs

    Mitarai, Namiko, Bemjamin, J., Krishna, S., Semsey, S., Csiszovszki, Z., Masse, E. & Sneppen, Kim, 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

  23. Dynamic features of gene expression control by small regulatory RNAs

    Mitarai, Namiko, Benjamin, J. M., Krishna, S., Semsey, S., Csiszovszki, Z., Massé, E. & Sneppen, Kim, 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

  24. Published

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

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

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

  25. Published

    Dynamics of bacterial populations under the feast-famine cycles

    Himeoka, Y. & Mitarai, Namiko, 27 Mar 2020, In: Physical Review Research. 2, 1, 15 p., 013372.

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

  26. Published

    Dynamics of the recovery from sRNA-mediated gene silencing

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

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

  27. Published

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

    Mathiesen, Joachim, Mitarai, Namiko, Sneppen, Kim & Trusina, Ala, 25 Oct 2011, In: Physical Review Letters. 107, 18, p. 188101

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

  28. Published

    Efficient degradation and expression prioritization with small RANs

    Mitarai, Namiko, Andersson, A. M. C., Krishna, S., Semsey, S. & Sneppen, Kim, 2007, In: Physical Biology. 4, 3, p. 164-171

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

  29. Published

    Emergence of diversity in a model ecosystem

    Mitarai, Namiko, Mathiesen, Joachim & Sneppen, Kim, 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

  30. Published

    Emergence of growth and dormancy from a kinetic model of the Escherichia coli central carbon metabolism

    Himeoka, Y. & Mitarai, Namiko, 30 Dec 2022, In: Physical Review Research. 4, 4, 23 p., 043223.

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

  31. Published

    Entrainment of noise-induced and limit cycle oscillators under weak noise

    Mitarai, Namiko, Alon, U. & Jensen, Mogens Høgh, 1 Jun 2013, In: Chaos. 23, 2, 023125.

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

  32. Erratum: Bagnold scaling, density plateau, and kinetic theory analysis of dense granular flow (Physical Review Letters (2005) 94 (128001))

    Mitarai, Namiko & Nakanishi, H., 13 Jul 2006, In: Physical Review Letters. 97, 1, 019902.

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

  33. Published

    Existence and construction of large stable food webs

    Härter, Jan Olaf Mirko, Mitarai, Namiko & Sneppen, Kim, 8 Sep 2017, In: Physical Review E. 96, 3, 032406.

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

  34. Published

    Existence of log-phase Escherichia coli persisters and lasting memory of a starvation pulse

    Svenningsen, Mikkel Skjoldan, Svenningsen, Sine Lo, Sørensen, Michael Askvad & Mitarai, Namiko, 2022, In: Life Science Alliance. 5, 2, 9 p., e202101076.

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

  35. Published

    Experimental observation of shear thickening oscillation

    Nagahiro, S., Nakanishi, H. & Mitarai, Namiko, 1 Oct 2013, In: EPL. 104, 2, 28002.

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

  36. Published

    Fast Translation within the First 45 Codons Decreases mRNA Stability and Increases Premature Transcription Termination in E. coli

    Pedersen, Steen, Terkelsen, Thilde Bagger, Eriksen, M., Hauge, M. K., Lund, C. C., Sneppen, Kim & Mitarai, Namiko, 2019, In: Journal of Molecular Biology. 431, 6, p. 1088-1097 10 p.

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

  37. Published

    Fluid dynamics of dilatant fluid

    Nakanishi, H., Nagahiro, S. & Mitarai, Namiko, 12 Jan 2012, In: Physical Review E (Statistical, Nonlinear, and Soft Matter Physics). 85, 1, p. 011401 11 p.

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

  38. Published

    Food Web Assembly Rules for Generalized Lotka-Volterra Equations

    Härter, Jan Olaf Mirko, Mitarai, Namiko & Sneppen, Kim, Feb 2016, In: PLoS Computational Biology. 12, 2, e1004727.

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

  39. Published

    From kill the winner to eliminate the winner in open phage-bacteria systems

    Marantos, Anastasios, Mitarai, Namiko & Sneppen, Kim, 8 Aug 2022, In: PLOS Computational Biology. 18, 8, 15 p., e1010400.

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

  40. Published

    Gene Expression Changes with Minor Effects on the Population Average Have Major Effects on the Occurrence of Cells with Extreme Protein Concentrations

    Svenningsen, Mikkel Skjoldan, Semsey, S. & Mitarai, Namiko, 2019, In: mSphere. 4, 1, p. 1-6 e00575-18.

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

  41. Published

    Granular flow: dry and wet

    Mitarai, Namiko & Nakanishi, H., 2012, In: European Physical Journal. Special Topics. 204, 1, p. 5-17 13 p.

    Research output: Contribution to journal › Review › Research › peer-review

  42. Published

    Hard-sphere limit of soft-sphere model for granular materials: Stiffness dependence of steady granular flow

    Mitarai, Namiko & Nakanishi, H., 19 Feb 2003, In: Physical Review E (Statistical, Nonlinear, and Soft Matter Physics). 67, 2, 021301.

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

  43. Published

    How pirate phage interferes with helper phage: Comparison of the two distinct strategies

    Mitarai, Namiko, 7 Feb 2020, In: Journal of Theoretical Biology. 486, 9 p., 110096.

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

  44. Published

    Information spreading and development of cultural centers

    Dybiec, B. M., Mitarai, Namiko & Sneppen, Kim, 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

  45. Published

    Instability of dilute granular flows on rough slope

    Mitarai, Namiko & Nakanishi, H., 1 Oct 2001, In: Journal of the Physical Society of Japan. 70, 10, p. 2809-2812

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

  46. Lattice model of sweeping interface for drying process in water-granule mixture

    Nakanishi, H., Yamamoto, R., Hayase, Y. & Mitarai, Namiko, 1 Feb 2007, In: Journal of the Physical Society of Japan. 76, 2, 024003.

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

  47. Published

    Linear stability analysis of rapid granular flow down a slope and density wave formation

    Mitarai, Namiko & Nakanishi, H., 25 May 2004, In: Journal of Fluid Mechanics. 507, p. 309-334

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

  48. Published

    Loewner driving functions for off-critical percolation clusters

    Kondo, Y., Mitarai, Namiko & Nakanishi, H., 2009, In: Physical Review E (Statistical, Nonlinear, and Soft Matter Physics). 80, 5, Part 1, p. 050102

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

  49. Published

    Modeling rises and falls in money addicted social hierarchies

    Dybiec, B., Mitarai, Namiko & Sneppen, Kim, 2014, In: Physica Scripta. 89, 8, 085002.

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

  50. Published

    Modeling slow-processing of toxin messenger RNAs in type-I toxin-antitoxin systems: post-segregational killing and noise filtering

    Himeoka, Y. & Mitarai, Namiko, Mar 2019, In: Physical Biology. 16, 2, 026001.

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

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