Publications in Journals

43. Multiple current reversals in driven inertial coupled Brownian particles under rough symmetric periodic potential
    Archana G R and D Barik*
    Physica A, 650, 129992, (2024)

42. Protocol for potential energy-based bifurcation analysis, parameter searching, and phase diagram analysis of noncanonical bistable switches
    D Barik* and S Das
    STAR Protocols, 4, 102665, (2023)

41. Investigation of airborne spread of Covid-19 using a hybrid agent-based model: A case study of the UK
    H Rahaman and D Barik*
    Royal Society Open Science, 10, 230377, (2023)

40. Origin, heterogeneity and interconversion of noncanonical bistable switches from the positive feedback loops under dual signaling
    S Das and D Barik*
    iScience, 26, 106379, (2023)

39. Roughness in the periodic potential induces absolute negative mobility in a driven Brownian ratchet
    Archana G R and D Barik*
    Physical Review E, 106, 044129, (2022)

38. Pulsatile signaling of bistable switches reveal the distinct nature of pulse processing by mutual activation and mutual inhibition loop
    S. Das and D Barik*
    Journal of Theoretical Biology, 540, 111075, (2022)

37. Emergent bistable switches from the incoherent feed-forward signaling of a positive feedback loop
    A. Dey and D Barik*
    ACS Synthetic Biology, 10, 3117, (2021)

36. Roughness in the periodic potential enhances transport in a driven inertial ratchet
    Archana G R and D Barik*
    Physical Review E, 104, 024103 (2021)

35. Scaling of intrinsic noise in an autocratic reaction network
    S. Das and D Barik*
    Physical Review E, 103, 042403, (2021)

34. Potential landscapes, bifurcations and robustness of tristable networks
    A. Dey and D Barik*
    ACS Synthetic Biology, 10, 391, (2021)

33. Qualitative and quantitative nature of mutual interactions dictate chemical noise in a democratic reaction network
    S. Das and D Barik*
    Physical Review E, 101, 042407, (2020)

32. Investigation of chemical noise in multisite phosphorylation chain using linear noise approximation
    S. Das and D Barik*
    Physical Review E, 100, 052402, (2019)

31. Dichotomous nature of bistability generated by negative cooperativity in receptor-ligand binding
    A. Dey and D Barik*
    ACS Synthetic Biology, 8, 1294, (2019)

30. Temperature dependent divergence of thermal conductivity in momentum conserving 1D lattices with asymmetric potential
    Archana G R and D Barik*
    Phys. Rev. E, 99, 022103, (2019)

29. Mathematical modeling identifies Lck as a potential mediator for PD-1 induced inhibition of early TCR signaling
    T. Arulraj and D Barik*
    PLoS ONE, 13, e0206232, (2018)

28. Parallel arrangements of positive feedback loops limit cell-to-cell variability in differentiation
    A. Dey and D Barik*
    PLoS ONE, 12, e0188623, (2017)

27. Steady state statistical correlations predict bistability in reaction motifs
    S. Chakravarty and D Barik*
    Molecular BioSystems, 13, 775, (2017)

26. A stochastic model of the yeast cell cycle reveals roles for feedback regulation in limiting cellular variability
      D. Barik*, D. A. Ball, J. Peccoud and  J. J. Tyson*
      Plos Computational Biology 12(12),e1005230 (2016)

25. Landauer's blowtorch effect as a thermodynamic cross process: Brownian cooling
      M. Das, D. Das D. Barik and D. S. Ray
      Phys. Rev. E. 92, 052102 (2015).      

24. T cells translate individual, quantal activation into collective, analog cytokine responses via time-integrated feedbacks
     K. E. Tkach, D. Barik, G. Voisinne, N. Malandro, M. M. Hathorn, J. W. Cotari, R. Vogel, T. Merghoub, J. Wolchok,
O. Krichevsky, and G. Altan-Bonnet
     eLife, 3:e01944, (2014)

23. Measurement and modeling of transcriptional noise in the cell cycle regulatory network
     D. A. Ball, N. R. Adames, N Reischmann, D. Barik, C. T. Franck, J. J. Tyson and J. Peccoud
     Cell Cycle, 12:19, 3203 (2013)

22. A model of yeast cell cycle regulation based on multisite phosphorylation
      D. Barik, W. T. Baumann, M. R. Paul, B. Novak and J. J. Tyson
      Molecular Systems Biology 6: 405 (2010)

21. Bistability by multiple phosphorylation of regulatory protein
      O. Kapuy, D. Barik, M. R. D. Sananes,  J. J. Tyson and B. Novak
      Progress in Biophysics Molecular Biology 100, 47 (2009)

20. Stochastic simulation of enzyme-catalyzed reactions with disparate time scales
      D. Barik, M. R. Paul, W. T. Baumann, Y. Cao and J. J. Tyson
      Biophysical Journal 95, 3563 (2008).     

19. State-dependent diffusion in a periodic potential for a nonequilibrium open system
      J. Ray Chaudhuri and D. Barik
      Euro. Phys. J. B 63, 117 (2008).

18. Self consistent microscopic theory of frictional ratchet in a nonequilibrium environment
      J. Ray Chaudhuri and D. Barik
      Ind. J. Phys.  82, 1577 (2008).

17. Anomalous heat conduction in a 2d Frenkel-Kontorova lattice
      D. Barik
      Euro. Phys. J. B 56, 229 (2007).      

16. Directed motion generated by heat bath nonlinearly driven by external noise
      J. Ray Chaudhuri, D. Barik and S. K. Banik
      J. Phys. A 40, 14715 (2007).      

15. Nonequilibrium fluctuation induced escape from a metastable state
      J. Ray Chaudhuri, D. Barik and S. K. Banik
      Euro. Phys. J B 55, 333 (2007).

14. Heat conduction in 2d harmonic lattices with on-site potential
      D. Barik
      Europhys. Lett. 75, 42 (2006).

13. Dynamics of a metastable state nonlinearly coupled to a heat bath driven by an external noise
      J. Ray Chaudhuri, D. Barik and S. K. Banik
      Phys. Rev. E. 74, 061119 (2006).      

12. Inhomogeneous quantum diffusion and decay of a meta-stable state
      P. K. Ghosh, D. Barik, and D. S. Ray
      Phys. Lett. A 360, 35 (2006).      

11. Escape rate from a metastable state weakly interacting with heat bath driven by external noise
      J. Ray Chaudhuri, D. Barik and S. K. Banik
      Phys. Rev. E. 73, 051101 (2006).      

10. Quantum equilibrium factor in the decay of a metastable state at low temperature
      D. Barik and D. S. Ray
      J. Stat. Mech. P06001 (2006).      

9. Quantum Kramers turnover: a phase space function approach
     D. Barik and D. S. Ray
     cond-mat/0411294.     

8. Langevin dynamics with dichotomous noise; direct simulation and applications,
     D. Barik, P. K. Ghosh and D. S. Ray
     J. Stat. Mech. P03010 (2006).     

7. Quantum escape kinetics over a fluctuating barrier
     P. K. Ghosh, D. Barik, B. C. Bag and D. S. Ray
     J. Chem. Phys. 123, 224104 (2005).

6. Noise induced quantum transport
     P. K. Ghosh, D. Barik and D. S. Ray
     Phys. Rev. E 71, 041107 (2005).

5. Noise induced transition in quantum system
     P. K. Ghosh, D. Barik and D. S. Ray
     Phys. Lett. A 342, 12 (2005).

4. Quantum state-dependent diffusion and multiplicative noise: a microscopic approach
     D. Barik and D. S. Ray
     J. Stat. Phys. 120, 339 (2005).

3. Anharmonic quantum contribution to vibrational dephasing
     D. Barik and D. S. Ray
     J. Chem. Phys. 121, 1681 (2004).

2. Numerical simulation of transmission coefficient using c-number Langevin equation
     D. Barik, B. C. Bag, and D. S. Ray
     J. Chem. Phys. 119, 12973 (2003).

1. Quantum phase-space function formulation of reactive flux theory
     D. Barik, S. K. Banik and D. S. Ray
     J. Chem. Phys. 119, 680 (2003).

Book:

Quantum brownian motion in C-numbers: theory and applications.
D. Barik, D. Banerjee and D. S. Roy
Nova Science Publishers, NY (2009).