rahul
Rahul Kulkarni
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Publications
  1. X. Xu, N. Kumar, A. Krishnan, R. V. Kulkarni “Stochastic modeling of dwell-time distributions during transcriptional pausing and initiation” Proceedings of the 52nd IEEE Conference on Decision and Control, Florence, Italy, 4068 (2013). [Abstract]

  2. T. Jia, and R.V. Kulkarni “On the structural properties of small-world networks with range-limited shortcut links” Physica A, 392, 6118 (2013). [Abstract]

  3. P. Kulkarni, T. Shiraishi and R. V. Kulkarni “Cancer: tilting at windmills?” Mol. Cancer, 12, 108 (2013). [Abstract]

  4. E. R. Morris, G. Hall, C. Li, S. Heeb, R. V. Kulkarni, L. Lovelock, H. Silistre, M. Messina, M. Cámara, J. Emsley, P. Williams, M. S. Searle “Structural rearrangement in an RsmA/CsrA ortholog of Pseudomonas aeruginosa creates a dimeric RNA-binding protein, RsmN” Structure, 21, 1659 (2013). [Abstract]

  5. R.V. Kulkarni “Queueing Up for Translation” Biophys J., 104, 2329 (2013). [Abstract]

  6. H. Pendar, T. Platini, and R.V. Kulkarni “Exact protein distributions for stochastic models of gene expression using partitioning of Poisson processes” Phys. Rev. E., 87, 042720 (2013). [Abstract]

  7. C. Baker, T. Jia and R.V. Kulkarni “Stochastic modeling of regulation of gene expression by multiple competing mall RNAs” Phys. Rev. E., 85, 061915 (2012). [Abstract]

  8. T. Platini, T. Jia, and R.V. Kulkarni “Regulation by small RNAs via coupled degradation: mean-field and variational approaches” Phys. Rev. E., 84, 021928 (2011). [Abstract]

  9. V. Elgart, T. Jia, A. T. Fenley, and R. V. Kulkarni “Connecting mRNA and protein burst distributions for stochastic models of gene expression” Phys Biol., 8, 046001 (2011). [Abstract]

  10. T. Jia and R.V. Kulkarni “Intrinsic noise in stochastic models of gene expression with molecular memory and bursting” Phys. Rev. Lett., 106, 058102 (2011). [Abstract]

  11. A. T. Fenley, S. K. Banik, and R. V. Kulkarni “Computational modeling of differences in the quorum-sensing induced luminescence phenotypes of Vibrio harveyi and Vibrio cholerae” Jour. Theor. Biol., 274, 145 (2011). [Abstract]

  12. V. Elgart, T. Jia and R. V. Kulkarni “Applications of Little’s Law to stochastic models of gene expression” Phys. Rev. E. , 82, 021901 (2010). [Abstract]

  13. T. Jia and R. V. Kulkarni “Post-transcriptional regulation of noise in protein distributions during gene expression” Phys. Rev. Lett. , 105, 018101 (2010). [Abstract]

  14. V. Elgart, T. Jia, and R. V. Kulkarni “Quantifying mRNA synthesis and decay rates using small RNAs” Biophys. J., 98, 2780 (2010). [Abstract]

  15. S. K. Banik, A. T. Fenley, and R. V. Kulkarni “A model for signal transduction during quorum-sensing in Vibrio harveyi” Phys. Biol., 6, 046008 (2009). [Abstract]

  16. A. Hsiao, X. Xu, B. Kan, R.V. Kulkarni, and J. Zhu “Direct regulation by the Vibrio cholerae regulator ToxT to modulate colonization and anti-colonization pilus expression” Infect Immun., 77, 1383 (2009). [Abstract]

  17. Amy M. Tsou, Tao Cai, Zhi Liu, Jun Zhu, and Rahul V. Kulkarni “Regulatory targets of quorum sensing in Vibrio cholerae: evidence for two distinct binding motifs” Nucl. Acids Res., 37, 2747 (2009). [Abstract]

  18. X. Xu and R. V. Kulkarni “Modeling of processes governing subcellular localization of MinD in Escherichia coli” IET Sys. Biol., 5, 285(2008). [Abstract]

  19. R. V. Kulkarni and P. R. Kulkarni “Computational approaches for the discovery of bacterial small RNAs” Methods, 43, 131 (2007). [Abstract]

  20. P. R. Kulkarni, X. Cui, J. H. Williams, A. M. Stevens, R. V. Kulkarni, “Prediction of CsrA-regulating small RNAs in bacteria and their experimental verification in Vibrio fischeri” Nucleic Acids Res, 34, 3361 (2006). [Abstract]

  21. D. H. Lenz, M. B. Miller, J. Zhu, R. V. Kulkarni and B. L. Bassler, “CsrA and three redundant small RNAs regulate quorum sensing in Vibrio cholerae” Mol Microbiol 58, 1186 (2005). [Abstract]

  22. R. V. Kulkarni, K. C. Huang, M. Kloster and N. S. Wingreen, “Pattern formation within E. coli: Diffusion, Membrane Attachment, and Self-Interaction of MinD Molecules” Phys. Rev. Lett. 93 228103 (2004). [Abstract]

  23. D. Lenz, K. Mok, B. Lilley, R. V. Kulkarni, N. Wingreen and B. Bassler, “The small RNA chaperone Hfq and multiple small RNAs control quorum sensing in Vibrio harveyi and Vibrio cholerae” Cell ;118, 69 (2004). [Abstract]

  24. E. Almaas, R. V. Kulkarni and D. Stroud, "Scaling properties of random walks on small-world networks"  Phys. Rev. E 68, 056105 (2003). [Abstract]

  25. M. Chandran and R. V. Kulkarni, "Fractionalization of a flux quantum in a one-dimensional parallel Josephson junction array with alternating π-bonds" Phys. Rev. B 68, 104505 (2003). [Abstract]

  26. D. L. Mobley, D. L. Cox, R. R. P. Singh, R. V. Kulkarni, A. Slepoy, "Simulations of oligomeric intermediates in prion diseases" Biophys. J., 85 2213-2223 (2003). [Abstract]

  27. R. V. Kulkarni, A. Slepoy, R. R. P. Singh, D. L. Cox and F. Pazmandi "Theoretical modeling of prion disease incubation" Biophys. J. 85, 707-718 (2003). [Abstract]

  28. E. Almaas, R. V. Kulkarni and D. Stroud, "Characterizing the structure of small-world networks" Phys. Rev. Lett. 88, 0981011 (2002). [Abstract]

  29. M. X. LaBute, R. V. Kulkarni, R. G. Endres and D. L. Cox "Strong electron correlations in cobalt valence tautomers" J. Chem. Phys. 116, 3681 (2002). [Abstract]

  30. A. Slepoy, R. R. P. Singh, F. Pazmandi, R. V. Kulkarni and D. L. Cox, "Statistical mechanics of prion diseases" Phys. Rev. Lett. 87, 058101 (2001). [Abstract]

  31. 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). [Abstract]

  32. R. V. Kulkarni and D. Stroud, "Ab Initio molecular dynamics simulation of liquid GaxAs1-x alloys" Phys. Rev. B 62, 4991 (2000). [Abstract]

  33. R. V. Kulkarni, E. Almaas and D. Stroud, "Exact results and scaling properties of small world networks" Phys. Rev. E 61, 4268  (2000). [Abstract]

  34. S. V. Khare, R. V. Kulkarni, D. Stroud and J. W. Wilkins, "First principles study of the energetics and STM images of Si ad-dimers on Ge(001)" Phys. Rev. B 60, 4458 (1999). [Abstract]

  35. R. V. Kulkarni and D. Stroud, "Ab Initio molecular dynamics simulation of liquid Ga-Ge alloys" Phys. Rev. B 57, 10476 (1998). [Abstract]

  36. R. V. Kulkarni, W. G. Aulbur, and D. Stroud, "Ab Initio molecular dynamics study of the structural and transport properties of liquid germanium" Phys. Rev. B 55, 6896 (1997). [Abstract]