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Publications | Clinical Systems Biology Group

Please find below a list in chronological order of publications from the Clinical Systems Biology Group.


  • Using a Consensus Docking Approach to Predict Adverse Drug Reactions in Combination Drug Therapies for Gulf War Illness. Jaundoo, R., Bohmann, J., Gutierrez, G., Klimas, N., Broderick, G., & Craddock, T. International journal of molecular sciences, 19(11), 3355 (2018)
  • A Logic Model of Neural-Glial Interaction Suggests Altered Homeostatic Regulation in the Perpetuation of Neuroinflammation. Craddock TJA, Michalovicz LT, Kelly KA, Rice MA Jr., Miller DB, Klimas NG, Morris M, O’Callaghan JP, Broderick G. Frontiers in Cellular Neuroscience 12, 336 (2018)
  • On the existence of superradiant excitonic states in microtubules. Celardo, G. L., Angeli, M., Kurian, P., & Craddock, T. J. A. arXiv preprint arXiv:1809.03438 (2018)
  • Breaking Away: The Role of Homeostatic Drive in Perpetuating Depression. Toole JT, Rice Jr MA, Craddock TJ, Nierenberg B, Klimas NG, Fletcher MA, Zysman J, Morris M, Broderick G. Psychoneuroimmunology: Methods and Protocols Second Edition. 2018:121.
  • Increasing Resilience to Traumatic Stress: Understanding the Protective Role of Well-Being. Toole JT, Rice Jr MA, Cargill J, Craddock TJ, Nierenberg B, Klimas NG, Fletcher MA, Morris M, Zysman J, Broderick G. Psychoneuroimmunology: Methods and Protocols Second Edition. 2018:87.
  • High-fidelity discrete modeling of the HPA axis: a study of regulatory plasticity in biology. Sedghamiz, H., Morris, M., Craddock, T. J., Whitley, D., & Broderick, G. BMC systems biology, 12(1), 76 (2018)
  • Coherent Energy Transfer and the Potential Implications for Consciousness. Toole, J. T., Kurian, P., & Craddock, T. J. A. Journal of Cognitive Science, 19(2), 115-124 (2018)
  • Water-mediated correlations in DNA-enzyme interactions. Kurian, P., Capolupo, A., Craddock, T. J. A., & Vitiello, G. Physics Letters A, 382(1), 33-43 (2018). 


  • The Effects of Oxidative Stress and Excited Species on Microtubules: A Potential Role for Ultraweak Photon Emission in Neurodegenerative Disease? Kurian P, Obisesan TO, Craddock TJA. Journal of Photochemistry & Photobiology, B: Biology 175 109-124 (2017)
  • Anesthetic Alterations of Collective Terahertz Oscillations in Tubulin Correlate with Clinical Potency: Implications for Anesthetic Action and Post-Operative Cognitive Dysfunction. Craddock TJA, Kurian P, Preto J, Sahu K, Hameroff SR, Klobukowski M, Tuszynski JA.  Scientific Reports 7: 9877 (2017)
  • Short-term sleep deprivation leads to decreased systemic redox metabolites and altered epigenetic status. Trivedi MS, Holger D, Bui AT, Craddock TJA, Tartar JL. PLoS ONE 12(7): e0181978. (2017)
  • Water Bridging Dynamics of Polymerase Chain Reaction in the Gauge Theory Paradigm of Quantum Fields. Montagnier L, Aïssa J, Capolupo A, Craddock TJ, Kurian P, Lavallee C, Polcari A, Romano P, Tedeschi A, Vitiello G. Water 11;9(5):339 (2017).
  • Synthetic Biology: From Gene Circuits to Novel Biological Tools. Argibay, N. G., Vazquez, E. M., Wilson, C. E., Craddock, T. J.,& Smith, R. P. Nanotechnology in Biology and Medicine: Methods, Devices, and Applications, 371 (2017). 
  • Cooperation and competition shape ecological resistance during periodic spatial disturbance of engineered bacteria. Wilson CE, Lopatkin AJ, Craddock TJA, Driscoll W, Eldakar O, Lopez J, Smith R. Scientific Reports 7: 440 (2017)
  • A case matched study examining the reliability of using ImPACT to assess effects of multiple concussions. Barker T, Russo SA, Barker G, Rice MA, Jeffrey MG, Broderick G, Craddock TJ. BMC Psychology 28;5(1):14. (2017)


  • The ‘Quantum Underground’ : Where Life and Consciousness Originate. Travis J. A. Craddock, Stuart R. Hameroff and Jack A. Tuszynski, in R. R. Poznanski, J. A. Tuszynski and T. E. Feinberg (eds.) Biophysics of Consciousness: A Foundational Approach(World Scientific, Singapore, 2016), Chapter 13.
  • A PER3 polymorphism interacts with sleep duration to influence transient mood states in women. Viena T, Gobin CM, Fins AI, Craddock TJA, Tartar A, Tartar JL. Journal of Circadian Rhythms, 14(1) (2016)


  • Biological wires, communication systems, and implications for disease. Friesen DE, Craddock TJA, Kalra AP, Tuszynski JA. Biosystems 127C: 14-27 (2015)
  • Cytoskeletal Electrostatic and Ionic Conduction Effects in the Cell. Friesen DE, Craddock TJA, Tuszynski JA, in Cifra M, Scholkmann F (eds.) Fields of the Cell, (Research Signpost, 2015), Chapter 13.
  • Sleep restriction and delayed sleep associate with psychological health and biomarkers of stress and inflammation in women. Tartar, J. L., Fins, A. I., Lopez, A., Sierra, L. A., Silverman, S. A., Thomas, S. V., & Craddock, T. J. Sleep Health 1(4):249-256 (2015)
  • Achieving Remission in Gulf War Illness: A Simulation-Based Approach to Treatment Design. Craddock, T. J., Del Rosario, R. R., Rice, M., Zysman, J. P., Fletcher, M. A., Klimas, N. G., & Broderick, G. PloS one, 10(7). (2015)
  • Using gene expression signatures to identify novel treatment strategies in gulf war illness. Craddock, T. J., Harvey, J. M., Nathanson, L., Barnes, Z. M., Klimas, N. G., Fletcher, M. A., & Broderick, G. BMC medical genomics, 8(1), 36. (2015)
  • Anesthetics Act in Quantum Channels in Brain Microtubules to Prevent Consciousness. Craddock TJA, Hameroff SR, Ayoub AT, Klobukowski M, Tuszynski JA. Curr Trend Med Chem 15(6):523-33 (2015)
  • Inferring Broad Regulatory Biology from Time Course Data: Have We Reached an Upper Bound under Constraints Typical of In Vivo Studies? Vashishtha, S., Broderick, G., Craddock, T. J., Fletcher, M. A., & Klimas, N. G. PloS one, 10(5). (2015)
  • Gulf War Illness: is There Lasting Damage to Endocrine-immune Circuitry? Mark Rice, Travis John Adrian Craddock, Ryan del Rosario, Zach Barnes, Nancy G. Klimas, Mary Ann Fletcher, Joel Zysman, Gordon Broderick.  Systems Biomedicine, 2(4), 80-89. (2016)


  • A role for homeostatic drive in the perpetuation of complex chronic illness: gulf war illness and chronic fatigue syndrome. Craddock TJ, Fritsch P, Rice MA Jr, Del Rosario RM, Miller DB, Fletcher MA, Klimas NG, Broderick G. PLoS One. 2014 Jan 8;9(1):e84839. doi:10.1371/journal.pone.0084839. PMID: 24416298
  • From Nano to Neuro and Beyond: A presentation of the emerging physics of consciousness from the ground up. Craddock TJA, Tuszynski JA, in Chopra D (ed.) Brain, Mind, Cosmos: The Nature of Our Existence and the Universe(Amazon Digital Services, Inc., 2014)
  • Keeping Time: Could Quantum Beating in Microtubules be the Basis for the Neural Synchrony Related to Consciousness? Craddock TJA, Priel A, Tuszynski JA. J Integr Neurosci 13(2): 293-311(2014).
  • Succumbing to the Laws of Attraction: Exploring the Sometimes Pathogenic Versatility of Discrete Immune Logic. Fritsch P, Craddock TJA, del Rosario R, Rice M, Smylie AL, Folcik V, de Vries G, Fletcher MA, Klimas N, Broderick G. Systems Biomedicine 1(3): 0-1(2014)
  • The Feasibility of Coherent Energy Transfer in Microtubules. Craddock TJA, Friesen D, Mane, J, Hameroff S, Tuszynski J. J Roy Soc Interface 11(100): 20140677 (2014)
  • Analysis of the Strength of Interfacial Hydrogen Bonds between Tubulin Dimers Using Quantum Theory of Atoms in Molecules. Atayoub AT, Craddock TJA, Klobukowski M, Tuszynski J. Biophys J 107(3): 740-750 (2014)
  • Quantum Effects in the Understanding of Consciousness. Hameroff SR, Tuszynski JA, Craddock TJA. J Inter Neurosci 13(2): 229-252 (2014)


  • Systems biology of complex symptom profiles: capturing interactivity across behavior, brain and immune regulation. Broderick G, Craddock TJ. Brain Behav Immun. 2013 Mar;29:1-8. doi: 10.1016/j.bbi.2012.09.008. Epub 2013 Sep 28. Review. PMID: 23022717


  • Modeling the yew tree tubulin and a comparison of its interaction with paclitaxel to human tubulin. Tuszynski JA, Craddock TJ, Mane JY, Barakat K, Tseng CY, Gajewski M, Winter P, Alisaraie L, Patterson J, Carpenter E, Wang W, Deyholos MK, Li L, Sun X, Zhang Y, Wong GK. Pharm Res. 2012 Nov;29(11):3007-21. doi: 10.1007/s11095-012-0829-y. PMID: 22833053
  • Computational predictions of volatile anesthetic interactions with the microtubule cytoskeleton: implications for side effects of general anesthesia. Craddock TJ, St George M, Freedman H, Barakat KH, Damaraju S, Hameroff S, Tuszynski JA. PLoS One. 2012;7(6):e37251. doi: 10.1371/journal.pone.0037251. PMID: 22761654
  • The zinc dyshomeostasis hypothesis of Alzheimer's disease. Craddock TJ, Tuszynski JA, Chopra D, Casey N, Goldstein LE, Hameroff SR, Tanzi RE. PLoS One. 2012;7(3):e33552. doi: 10.1371/journal.pone.0033552. PMID: 22457776
  • Cytoskeletal signaling: is memory encoded in microtubule lattices by CaMKII phosphorylation? Craddock TJ, Tuszynski JA, Hameroff S. PLoS Comput Biol. 2012;8(3):e1002421. doi: 10.1371/journal.pcbi.1002421. PMID: 22412364
  • An investigation of the plausibility of stochastic resonance in tubulin dimers. Saha AA, Craddock TJ, Tuszynski JA. Biosystems. 2012 Feb;107(2):81-7. doi: 10.1016/j.biosystems.2011.09.005. PMID: 22001523
  • Molecular Models of Information Processing at the Level of Individual Neurons and Their Significance. Craddock TJA, Tuszynski JA.  J Paritantra - J Syst Sci Eng 2012; 20(1): 15-31.


  • "Memory bytes" - molecular match for CaMKII phosphorylation encoding of microtubule lattices. Hameroff SR, Craddock TJ, Tuszynski JA. J Integr Neurosci. 2010 Sep;9(3):253-67. PMID: 21064217
  • Microtubule ionic conduction and its implications for higher cognitive functions. Craddock TJ, Tuszynski JA, Priel A, Freedman H. J Integr Neurosci. 2010 Jun;9(2):103-22. Review. PMID: 20589950
  • A critical assessment of the information processing capabilities of neuronal microtubules using coherent excitations. Craddock TJ, Tuszynski JA. J Biol Phys. 2010 Jan;36(1):53-70. doi: 10.1007/s10867-009-9158-8. PMID: 19669419
  • Neuropsychiatric Illness: A Case for Impaired Neuroplasticity and Possible Quantum Processing Derailment in Microtubules. Woolf NJ, Craddock TJA, Friesen DE, Tuszynski JA.  NeuroQuant 2010; 8(1): 13-28.


  • Information processing mechanisms in microtubules at physiological temperature: Model predictions for experimental tests. Craddock TJ, Beauchemin C, Tuszynski JA.Biosystems. 2009 Jul;97(1):28-34. doi: 10.1016/j.biosystems.2009.04.001. PMID: 19477062


  • Bioferroelectricity at the Nanoscale. Tuszynski JA, Craddock TJA, Carpenter RJ.  J Theor Comput Nanosci 2008; 5: 2022-2032.


  • On the Role of the Microtubules in Cognitive Brain Functions. Craddock TJA, Tuszynski JA. NeuroQuant 2007; 5(1): 32-57.
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