Publications in Chronological Order

Chronological

  1. Diversity of T cell Responses 
    abstract  pdf
    Stromberg, S. P., and J. M. Carlson, Physical Biology, submitted, (2012).

  2. Dynamics of polymer molecules with sacrificial bond and hidden length systems: towards a physically-based mesoscopic constitutive law 
    abstract  pdf
    Elbanna, A. E., and J. M. Carlson, Physical Review E, submitted, (2012).

  3. BICAR: A new algorithm for multiresolution data fusion 
    abstract  pdf
    Brown, K. S., Grafton, S. T., and J. M. Carlson, PLoS ONE, submitted, (2012).

  4. Structural predictors of resting-state and task-based function 
    abstract  pdf
    Hermundstad, A. M., Bassett, D. S., Brown, K. S., Carlson, J. M., Grafton, S. T., Aminoff, E. and C. Tipper, in preparation, (2012).

  5. Dynamic resource allocation in disaster response: tradeoffs in wildfire suppression 
    abstract  pdf
    Petrovic, N., David L. Alderson and Jean M. Carlson, PLoS ONE, 7(4): e33285. doi:10.1371/journal.pone.0033285, (2012).

  6. A Decision Making Framework for Wildfire Suppression 
    abstract  pdf
    Petrovic, N., and J. M. Carlson, submitted, (2011).

  7. Systematic Effects of Foreground Removal in 21-cm Surveys of Reionization 
    abstract  pdf
    Petrovic, N., and P. Oh, MNRAS, 413, 2103–2120, (2011).

  8. Architectural constraints on learning and memory function 
    pdf
    Hermundstad, A. M., Brown, K. S, Bassett, D. S., and J. M. Carlson, BMC Neuroscience, 12(Suppl. 1):P31, (2011).

  9. Structural Drivers of Function in Information Processing Networks 
    abstract  pdf
    Hermundstad, A. M., Brown, K. S., Bassett, D. S., and J. M. Carlson, Proceedings of the Forty-Fifth Asilomar Conference on Signals, Systems, and Computers, 837-841, (2011).

  10. Dynamic reconfiguration of human brain networks during learning 
    abstract  pdf
    Bassett, D. S., Wymbs, N., Porter, M. A., Mucha, P., Carlson, J. M., and S. A. Grafton, PNAS 108(18):7641-6 (2011).

  11. Conserved and variable architecture of human white matter connectivity 
    abstract  pdf
    Danielle S. Bassett, Jesse A. Brown, Vibhas Deshpande, Jean M. Carlson, Scott T. Grafton, Neuroimage, 15;54(2):1262-79 (2011).

  12. How simple can a fire regime model be while still approximating reality? 
    abstract  pdf
    Peterson S. H., Doyle J., and Carlson J. M., in preparation.

  13. Wildfire resource allocations in conditions involving multiple threats 
    abstract  pdf
    Petrovic, Nada and J. M. Carlson, in preparation.

  14. Learning, Memory, and the Role of Neural Network Architecture 
    abstract pdf  
    Hermundstad AM, Brown KS, Bassett DS, Carlson JM, PLoS Comput Biol 7(6): e1002063. doi:10.1371/journal.pcbi.1002063 (2011).

  15. Pupillometric evidence for the decoupling of attention from perceptual input during offline thought 
    abstract  pdf
    Jonathan Smallwood, Kevin S. Brown, Christine Tipper, Barry Giesbrecht1, Michael S. Franklin, Michael D. Mrazek, Jean M. Carlson & Jonathan W. Schooler, PLoS ONE 6(3): e18298. doi:10.1371/journal.pone.0018298 (2011).

  16. Time-resolved community detection in motor learning 
    abstract  pdf
    Bassett, Danielle S., Nicholas F. Wymbs, Mason A. Porter, Peter Mucha, Jean M. Carlson, Scott T. Grafton, Proceedings of the National Academy of Science, submitted, (2010).

  17. Optimization of Fire Response Strategies 
    abstract  pdf
    Petrovic, Nada and Jean Carlson, Proceedings of the National Academy of Science, submitted, (2010).

  18. Energetics of strain localization in a model of seismic slip 
    abstract  pdf
    A. M. Hermundstad, E. G. Daub, and J. M. Carlson, J. Geophys. Res., 115, B06320, doi:10.1029/2009JB006960 (2010).

  19. Friction, Fracture, and Earthquakes 
    abstract  pdf
    Daub, E. G., and J. M. Carlson, Ann. Rev. of Cond. Matt. Phys., Vol. 1: 397-418, DOI: 10.1146/annurev-conmatphys-070909-104025 (2010).

  20. Pathogen Induced Tolerance  
    abstract pdf  
    S. P. Stromberg and J. M. Carlson, PLoS One, in review, (2010).

  21. Modeling Long-term Fire Regimes of Southern California Shrublands 
    abstract pdf 
    Peterson, Seth H., Moritz, M.A., Morais, M.E., Dennison, P.E. and Carlson, J.M. International Journal of Wildland Fire, in press, (2010).

  22. Validation of Coevolving Residue Algorithms via Pipeline Sensitivity Analysis : ELSC and OMES and ZNMI, oh my! 
    abstract   pdf
    Christopher A. Brown and Kevin S. Brown, PLoS ONE, in press (2010).

  23. Pulse-like, crack-like, and supershear earthquake ruptures with shear strain localization  
    abstract pdf
    E.G. Daub, M.L. Manning, and J.M. Carlson, J. Geophys. Res., 115,, B05311, doi:10.1029/2009JB006388 (2010).

  24. The Suppression of Immune System Disorders by Passive Attrition 
    abstract  pdf
    Stromberg, S. P., and J. M. Carlson, PLoS One 5(3):e9648, (2010).

  25. Improving Human Brain Mapping via Joint Inversion of Brain Electrodynamics and the BOLD Signal 
    abstract  pdf
    Brown, K., Ortigue, S., Grafton, S., and Carlson, J.M., NeuroImage 49 2401-2415, (2010).

  26. Using HFire for Spatial Modeling of Fire in Shrublands 
    abstract pdf  
    Peterson, Seth H.; Morais, Marco E.; Carlson, Jean M.; Dennison, Philip E.; Roberts, Dar A.; Moritz, Max A.; Weise, David R. Res. Pap. PSW-RP-259, Albany, CA: U.S. Department of Agriculture, Forest Service, Pacific Southwest Research Station. 44 p., (2009).

  27. Deformation and Localization in Earthquake Ruptures and Stick-Slip Instabilities 
    abstract  pdf
    Daub, E. G., thesis (2009).

  28. Stick-slip instabilities and shear strain localization in amorphous materials 
    abstract  pdf
    E. G. Daub and J. M. Carlson, Phys. Rev. E. 80, 066113 (2009).

  29. Dynamics of Immune System Vulnerabilities 
    abstract  pdf
    Sean P. Stromberg, thesis (2009).

  30. Fire in the Earth System 
    abstract  pdf
    David M. J. S. Bowman, J. K. Balch, P. A., William, J. Bond, J. M. Carlson, M. A. Cochrane, C. M. D’Antonio, R. S. DeFries, J. C. Doyle, S. P. Harrison, F. H. Johnston, J. E. Keeley, M. A. Krawchuk, C. A. Kull, J. B. Marston, M. A. Moritz, I. C. Prentice, C. I. Roos, A. C. Scott, T. W. Swetnam, G. R. van der Werf, S. J. Pyne, Science, Vol. 324. no. 5926, pp. 481 - 484 DOI: 10.1126/science.1163886, (2009).

  31. Seismicity in a Model Governed by Competing Frictional Weakening and Healing Mechanisms 
    abstract pdf
    G. Hillers, J. M. Carlson, and R. J. Archuleta, Geophysical Journal International, Volume 178, Number 3, 1363-1383(21), (2009).

  32. Using ICA and realistic BOLD models to obtain joint EEG/fMRI solutions to the problem of source localization 
    abstract pdf
    T. Brookings, S. Ortigue, S. Grafton, and J. Carlson, NeuroImage, 15;44(2):411-20,(2009).

  33. Rate dependent shear bands in a shear transformation zone model of amorphous solids 
    abstract pdf
    M. L. Manning, E. G. Daub, J. S. Langer, and J. M. Carlson, Phys Rev E, 79, 016110 (2009).

  34. Constraining Earthquake Source Inversions with GPS Data 1: Resolution Based Removal of Artifacts  
    abstract pdf
    Page, Morgan T., Susana Custódio, Ralph J. Archuleta, and J. M. Carlson, submitted to JGR - Solid Earth.(2009).

  35. Mapping live fuel moisture with MODIS data: A multiple regression approach 
    abstract  pdf
    Seth H. Peterson, Dar A. Roberts, and Philip E. Dennison, Remote Sensing of Evironment, Volume 112, Issue 12, Pages 4272-4284, doi:10.1016/j.rse.2008.07.012, (2008).

  36. What grid cells convey about rat location 
    abstract  pdf
    I. R. Fiete, Y. Burak, T. Brookings, The Journal of Neuroscience, 28(27):6858-6871; doi:10.1523/JNEUROSCI.5684-07.2008, (2008).

  37. Shear strain localization in elastodynamic rupture simulations 
    abstract pdf
    E.G. Daub, M.L. Manning, and J.M. Carlson, Geophysical Research Letters, 35, L12310, doi:10.1029/2008GL033835 (2008).

  38. A constitutive model for fault gouge deformation in dynamic rupture simulations 
    abstract pdf
    E.G. Daub and J.M. Carlson, Journal of Geophysical Research, 113, B12309, doi:10.1029/2007JB003577 (2008).

  39. Momentum transport in granular flows  
    abstract pdf
    Lois, G., Lemaitre, A., and Carlson, J.M., Computers and Mathematics with Applications 55, 175-183 (2008).

  40. Strain localization in a shear transformation zone model for amorphous solids 
    abstract pdf
    M.L. Manning, J.S. Langer, and J.M. Carlson, Phys. Rev. E 76 056106 (2007).

  41. Descriptor approach for eliminating spurious eigenvalues in hydrodynamic equations 
    abstract pdf
    M.L. Manning, B. Bamieh, and J.M. Carlson, Journal of Computational Physics, arXiv:0705.1542v2 [physics.comp-ph] (2007).

  42. Steady-state, effective-temperature dynamics in a glassy material.
    abstract pdf
    J. S. Langer and M. L. Manning. Phys. Rev. E 76 056107 (2007).

  43. Force networks and the dynamic approach to jamming in sheared granular media
     abstract pdf 
    Lois, G., and Carlson, J.M., Europhys. Lett.80, 58001 (2007)

  44. Spatial force correlations in granular shear flow I: numerical evidence  
    abstract pdf 
    Lois, G., Lemaitre, A., and Carlson, J. M., Phys. Rev. E.76, 021302 (2007)

  45. Spatial force correlations in granular shear flow II: theoretical implications
    abstract  pdf 
    Lois, G., Lemaitre, A., and Carlson, J. M., Phys. Rev. E.76, 021303 (2007)

  46. Microstructure and Modeling of Granular Materials
    abstract  pdf
    G. Lois, thesis (2006)

  47. Emergence of multi-contact interactions in contact dynamics simulations of granular shear flows 
    abstract   pdf
    G. Lois, A. Lemaitre and J. M. Carlson, Europhysics Letters 76, 318 (2006)

  48. Methodologies for Earthquake Hazard Assessment: Model Uncertainty and the WGCEP-2002 Forecast
    abstract  pdf
    Page, M. T. and J. M. Carlson (2006) Bull. Seism. Soc. Am. 96, 5, doi: 10.1785/0120050195

  49. Robustness and Fragility in Immunosenescence
    abstract  Small pdf  Large pdf
    Stromberg SP, Carlson J (2006) PLoS Comput Biol 2(11): e160. doi:10.1371/journal.pcbi.002016

  50. Numerical Tests of Constitutive Laws for Dense Granular Flows
    abstract  pdf
    G. Lois, A. Lemaitre and J. M. Carlson, Physical Review E 72, 051303 (2005).

  51. Distinguishing Barriers and Asperities in Near-Source Ground Motion
    abstract  pdf
    Page, M. T., E. M. Dunham, and J. M. Carlson (2005) J. Geophys. Res. - Solid Earth.  110, B11302, doi:10.1029/2005JB003736.

  52. Highly optimized tolerance and power laws in dense and sparse resource regimes
    abstract ps pdf
    Manning, M, Carlson, JM & Doyle, J (2005) Phys. Rev. E 72, article 016108.

  53. Three mechanisms for power laws on the Cayley tree
    abstract ps pdf
    Brookings, T, Carlson, JM & Doyle, J (2005) Phys. Rev. E 72, article 056120.

  54. Robustness and the Internet: Theoretical Foundations abstract 
    pdf 
    Doyle, J.C. S. Low, S., Carlson, J.M., Paganini, F., Vinnicombe, G., Willinger, W., and Parillo, P. (2005) Robust Design: A Repertoire of Biological, Ecological, and Engineering Case Studies (Santa Fe Institute Studies on the Sciences of Complexity) , Eric Jen, Editor, Oxford University Press.

  55. Wildfires, Complexity and Highly Optimized Tolerance
    abstract pdf
    Moritz, M., Morias, M., Summerell, L., Carlson, J.M., and J. Doyle (2005) Proc. Nat. Acad. Sci.102, 17912-17917.

  56. Evolutionary Dynamics and Highly Optimized Tolerance  
    abstract pdf 
    Zhou, T., Carlson, J.M., and Doyle, J. (2005) J. Theor. Bio. 236 , 438-447.

  57. Boundary lubrication with a glassy interface abstract
    pdf
    A. Lemaitre and J. M. Carlson, Physical Review E 69, 61611 (2004)

  58. Near-source Ground Motion from Steady State Dynamic Rupture Pulses
    abstract pdf  supplement-pdf
    Dunham, E & Archuleta, R (2004) Geophys. Res. Lett. 32, L03302, doi:10.1029/2004GL021793.

  59. Dissipative interface waves and the transient response of a three dimensional sliding interface with Coulomb friction
    abstract  pdf
    Dunham, E (2004) J. Mech. Phys. Solids. 53,327-357.

  60. Evidence for a supershear transient during the 2002 Denali earthquake
    abstract   pdf
    Dunham, E & Archuleta, R (2004) Bull. Seism. Soc. Am. 94, S256-S268.

  61. Coarse graining and control theory model reduction
    ps  pdf
    Reynolds, D.E. (submitted to J. Stat. Phys., 2003).

  62. A Supershear Transition Mechanism for Cracks
    abstract  pdf
    Dunham, E, Favreau, P, & Carlson, JM (2003) Science 299, 1557-1559.

  63. Complexity and robustness
    abstract ps pdf
    Carlson, JM & Doyle, J (2002) Proc. Nat. Acad. Sci. 99 , 2538-2545.

  64. Mutation, specialization, and hypersensitivity in HOT
    abstract ps pdf
    Zhou, T, Carlson, JM & Doyle, J (2002) Proc. Nat. Acad. Sci. 99 , 2049-2054.

  65. Design degrees of freedom and mechanisms for complexity
    abstract ps pdf
    Reynolds, D, Carlson, JM & Doyle, J (2002) Phys. Rev. E 66, article 016108.

  66. Dynamics and changing environments in HOT
    abstract ps pdf
    Zhou, T & Carlson, JM (2001) Phys. Rev. E 62, 3197-3204.

  67. Highly Optimized Tolerance in epidemic models incorporating local optimization and regrowth
    abstract ps pdf
    Robert, C, Carlson, JM & Doyle, J (2001) Phys. Rev. E 63 , article 056122.

  68. Rupture pulse characterization: Self-healing, self-similar, expanding solutions in a continuum model of fault dynamics
    abstract  ps  pdf
    Nielson, SB & Carlson, JM (2000) Bull. Seismol. Soc. Amer. 90,1480-1497.

  69. Influence of friction and fault geometry on earthquake rupture
    abstract   ps   pdf
    Nielson, SB, Carlson, JM & Olsen, KB (2000) J. Geophys. Res.-Solid Earth 105, 6069-6088.

  70. HOT: Robustness and design in complex systems
    abstract ps pdf
    Carlson, JM & Doyle, J (2000) Phys. Rev. Lett. 84, 2529-2532.

  71. Power laws, HOT, and generalized source coding
    abstract ps pdf
    Doyle, J & Carlson, JM (2000) Phys. Rev. Lett. 84, 5656-5659.

  72. HOT: A mechanism for power laws in designed systems
    abstract ps pdf
    Carlson, JM & Doyle, J (1999) Phys. Rev. E 60, 1412-1427.

  73. Bifurcations from steady sliding to slip in boundary lubrication
    abstract  ps   pdf
    Batista, AA & Carlson, JM (1998) Phys. Rev. E 57, 4986-4996.

  74. Constitutive relation for the friction between lubricated surfaces
    abstract  ps   pdf
    Carlson, JM & Batista, AA (1996) Phys. Rev. E 53, 4153-4165.