Publications

I. Publications in Refereed Journals:

1. Burykin, A., Peck, T., Krejci, V., Vannucci, A., Kangrga, I., Buchman T. G., Towards Optimal Display of Physiologic Status in Critical Care: I. Recreating Bedside Displays from Archived Physiologic Data (Submitted to J. of Critical Care).
2. Burykin, A., Peck, T., Hoertel J.R., Buchman T. G., Using "Off-the-Shelf" Tools for Terabyte-Scale Vital Sign Recording in Intensive Care: Design of the  Computer System, Description of the Selected Datasets and Lessons Learned During the Databasing. (Submitted to Computer Methods and Programs in Biomedicine).
3. Lu*, Y., Burykin*, A., Deem, M.W., Buchman T. G. Predicting Clinical Physiology: A Markov Chain Model of Heart Rate Recovery After Spontaneous Breathing Trials in Mechanically Ventilated Patients. J. of Critical Care 24(3):347-361 (2009). [* equal authorship]  (PDF). See also: Invited Commentary, Raphael, D.T.,  J. of Critical Care 24(3):362-363 (2009)  (PDF).
   
4. Polpitiya, A. D., McDunn, J. E., Burykin, A., Ghosh, B. K., Cobb, J. P. Using Systems Biology to Simplify Complex Disease: Immune Cartography. Critical Care Medicine. 37(1 Suppl): S16-21 (2009).  (PDF)
5. Burykin, A, Buchman T. G. Cardiorespiratory Dynamics during Transitions between Mechanical and Spontaneous Ventilation in Intensive Care. Complexity, 13(6): 40-59 (2008) (COVER IMAGE) (PDF).
6. McDunn, J. E., Husain, K. D., Polpitiya, A. D., Burykin, A., Rua, J., Li, Q., Schierding, W., Lin, N., Dixon, D., Zhang, W., Coopersmith, C. M., Dunne, W. M., Colonna, M., Ghosh, B., Cobb, J. P. Plasticity of the Systemic Inflammatory Response to Acute Infection During Critical Illness: Development of the Riboleukogram. PLoS ONE 3(2): e1564. doi:10.1371/journal.pone.0001564 (2008) (PDF).
7. Burykin, A, Warshel, A, Membranes Assembled from Narrow Carbon Nanotubes Block Proton Transport and Can Form Effective Nano Filtration Devices. J. of Computational and Theoretical Nanoscience 3. 237-242 (2006) (COVER IMAGE) (PDF).
8. Braun-Sand, S, Burykin, A., Chu, Z. T., Warshel, A, Realistic Simulation of Proton transport along the Gramicidin channel: demonstrating the importance of solvation effects. J. of Physical Chemistry B 109:586-592 (2005) (PDF).
9. Burykin, A, Warshel, A, On the Origin of the Electrostatic Barrier for Proton Transport in Aquaporin. FEBS Letters, 570(1-3):41-46 (2004) (COVER IMAGE) (PDF).
10. Burykin, A, Warshel, A, What really prevents proton transport through aquaporin? Charge self-energy vs. proton wire proposals. Biophysical J. 85:3696-3706 (2003) (PDF).
11. Burykin, A, M. Kato, A. Warshel, Exploring the Origin of the Ion Selectivity of the KcsA Potassium Channel. Proteins: Structure, Function, and Genetics 52:412-426 (2003) (PDF).
12. Burykin, A, Schutz C. N., Villa J., Warshel A., Simulations of Ion Current in Realistic Models of Ion Channels: The KcsA Potassium Channel. Proteins: Structure, Function, and Genetics 47:262-280 (2002) (COVER IMAGE)  (PDF).
    

II. Manuscripts in Preparation:

13. Burykin, A., Costa, M.D., Peng, C-K., Goldberger, A.L. Buchman T. G., Construction of Asymmetric Time Series.
    
14. […], Cardiac Arrest and Resuscitation During Orthotopic Liver Transplantation: Real Time Hemodynamic and Ventilator Recordings.

III. Other Publications & Technical Reports:

15. Burykin, A., Understanding Time Series Modularity, Report for DARPA FunBio Project, 2009.
    
16. Burykin, A, Adamcsek, B., Agent-Based Modeling of Networks of Logistic Maps with Long-Range Coupling. Proceedings of the 2005 Complex Systems Summer School. Santa Fe Institute, 7pp. (PDF) (SFI version: PDF)
17. Burykin, A, Computer Simulation Studies of Charge Transfer through Biological and Artificial Membrane Channels (Ph.D. Thesis, 300 pp.) (2005). (PDF)
18. Burykin, A, Ernst, G., Seely, A. J. E. altered variability in multiple organ failure: Model of Coupled Stochastic Oscillators. Project Report for 2004 Summer School "Mathematical and Computer Models in Medicine: Disease and Treatment", Santa Fe Institute, 10pp.
19. Burykin, A, Development of methods for computer simulation of human Body systems (for the case of the cardiovascular system) (M.S. Thesis, 87pp. in russian) (2000) (PDF)
20. Kholodov, A, Burykin, A, Evdokimov, A., et al., Future Development of the Computer Model of Human Organism. MIPT Working Paper (Project GARKUSHA) (in russian) (2000).
21. Kholodov, A, Burykin, A, Evdokimov, A, Lobanov, A., Safarov, A., et al., Computer Model of Human Organism for Prediction of Effects of External Ecological (Physical, Chemical and Biological) Factors. MIPT Technical Report (Project GARBIA-3) (in russian). Part 1, 190 pp. (1998), Part 2, 553 pp. (1999).
22. Burykin, A., Design of the Federal Medical Network "Russian Telemedicine". Diploma Thesis, 21 pp. (in Russian) (1999).
23. Burykin, A., Bykov, V.P., Formation of Coherent Radiation Inside of an Infinitely Long Thin Layer of Dielectric and Its Removal through the Lateral Surface of the Layer by Means of Defocusing. MIPT Working Paper, (in russian) (1999) (PDF)
24. Burykin, A., Theoretical Investigations of Conversion of Non-Coherent Radiation to Coherent Radiation Inside of a Thin Layer of Dye and Its Removal through the Lateral Surface of the Layer by Means of Defocusing (B.S. Thesis, 24pp. in russian) (1998) (PDF)

IV. Published Abstracts:

25. Burykin A, Lu, Y., Deem, M.W., Buchman T. G., Fluctuation-Dissipation Theorem Provides a Simple Analytical Relationship between Post-Stress Heart Rate Recovery and Heart Rate Variability During the Stress. J. of Critical Care 24(3) e31. Sept. 2009. (PDF)
26. Burykin A, Buchman T. G. Cardiorespiratory dynamics in critical care. J. of Critical Care 21 (4): A350-A351. Dec 2006.
27. McDunn J.E., Burykin A, Schierding W, Cobb J.P., Ghosh B., Stormo G.D., Polpitiya A.D. Plasticity of the human innate immune response to acute infection during critical illness: Development of the riboleukogram. Critical Care Medicine 34 (12): A47-A47 183 Sp. Iss. SI Suppl. S Dec 2006.
28. Burykin, A, Warshel, A, What really prevents proton transport through aquaporin? Charge self-energy vs. proton wire proposals. Abstracts of Papers of the American Chemical Society 227: U319-U319 397-PHYS Part 2, Mar 28 2004.
29. Burykin, A, Warshel, A, What really prevents proton transport through aquaporin? Charge self-energy vs. proton wire proposals. Biophysical J. 86 (1): 612A-612A Part 2 Suppl. S, Jan 2004.
30. Burykin, A, M. Kato, A. Warshel, Simulating ion current and selectivity in realistic models of the KcsA potassium channel. Abstracts of Papers of the American Chemical Society 225: U462-U462 193-PHYS Part 2, Mar 2003.
31. Burykin, A, Schutz C. N., Villa J., Warshel A., On-the-fly simulations of ion current in realistic models of ion channels: The KcsA potassium channel. Biophysical J. 82 (1): 207A-208A 1011 Part 2, Jan 2002.