Publications

Full text access may require institutional or personal subscription

  1. E. S. Arnardottir, E. V. Nikonova, K. R. Shockley, A. A. Podtelezhnikov, et al. Blood-gene expression reveals reduced circadian rhythmicity in individuals resistant to sleep deprivation, Sleep 37 1589-1600 (2014). Abstract
  2. B. Zhang, C. Gaiteri, L-G. Bodea, Zh. Wang, J. McElwee, A. A. Podtelezhnikov, et al. Integrated systems approach identifies genetic nodes and networks in late-onset Alzheimer's disease, Cell 153, 707-720 (2013). Abstract
  3. A. Bernard, L. S. Lubbers, K. Q. Tanis, R. Luo, A. A. Podtelezhnikov, et al. Transcriptional architecture of the primate neocortex, Neuron 73, 1083-1099 (2012). Abstract
  4. I. Krop, T. Demuth, T. Guthrie, et al., A. Podtelezhnikov, et al. Phase I pharmacologic and pharmacodynamic study of the gamma secretase (Notch) inhibitor MK-0752 in adult patients with advanced solid tumors, JCO 30 2307-2313 (2012). Abstract
  5. A. A. Podtelezhnikov, K. Q. Tanis, M. Nebozhyn, W. J. Ray, D. J. Stone and A. P. Loboda. Molecular insights into the pathogenesis of Alzheimer's disease and its relationship to normal aging, PLoS ONE 6 e29610 (2011). Abstract
  6. A. McCampbell, K. Wessner, M. W. Marlatt, C. Wolffe, D. Toolan, A. Podtelezhnikov, et al. Induction of Alzheimer's-like changes in brain of mice expressing mutant APP fed excess methionine, J. Neurochem. 116, 82-92 (2011). Abstract
  7. A. A. Podtelezhnikov and D. L. Wild. Reconstruction and stability of secondary structure elements in the context of protein structure prediction, Biophys. J. 96, 4399-4408 (2009). Abstract
  8. A. A. Podtelezhnikov and D. L. Wild. Comment on "Efļ¬cient Monte Carlo trial moves for polypeptide simulations" [J. Chem. Phys. 123, 174905 (2005)], J. Chem. Phys. 129, 027103 (2008). Abstract
  9. A. A. Podtelezhnikov and D. L. Wild. CRANKITE: A fast polypeptide backbone conformation sampler, Source Code Biol. Med. 3, 12 (2008). Abstract
  10. A. A. Podtelezhnikov, Z. Ghahramani, D. L. Wild. Learning about protein hydrogen bonding by minimizing contrastive divergence, Proteins 66, 588-599 (2007). Abstract
  11. W. Chu, Z. Ghahramani, A. Podtelezhnikov, D. L. Wild. Bayesian segmental models with multiple sequence alignment profiles for protein secondary structure and contact map prediction, IEEE/ACM Trans. Comp. Biol. Bioinformatics 3, 98-113 (2006). Abstract
  12. A. A. Podtelezhnikov and D. L. Wild. Exhaustive Metropolis Monte Carlo sampling and analysis of polyalanine conformations adopted under the influence of hydrogen bonds, Proteins 61, 94-104 (2005). Abstract
  13. A. A. Podtelezhnikov, K. Gao, F. D. Bushman and J. A. McCammon. Modeling HIV-1 integrase complexes based on their hydrodynamic properties, Biopolymers 68, 110-120 (2003). Abstract
  14. A. V. Vologodskii, W. T. Zhang, V. V. Rybenkov, A. A. Podtelezhnikov, D. Subramanian, J. D. Griffith, N. R. Cozzarelli. Mechanism of topology simplification by type II DNA topoisomerases, Proc. Natl. Acad. Sci. U.S.A. 98, 3045-3049 (2001). Abstract
  15. A. A. Podtelezhnikov, C. Mao, N. C. Seeman and A. V. Vologodskii. Multimerization-cyclization of DNA fragments as a method of conformational analysis, Biophysical Journal 79, 2692-2704 (2000). Abstract
  16. A. A. Podtelezhnikov and A. V. Vologodskii. Dynamics of small loops in DNA molecules, Macromolecules 33, 2767-2771 (2000). Abstract
  17. A. A. Podtelezhnikov, N. R. Cozzarelli and A. V. Vologodskii. Equilibrium distributions of topological states in circular DNA: interplay of supercoiling and knotting, Proc. Natl. Acad. Sci. U.S.A. 96, 12974-12979 (1999). Abstract
  18. A. S. Krasilnikov, A. Podtelezhnikov, A. Vologodskii and S. M. Mirkin. Large-scale effects of transcriptional DNA supercoiling in vivo, J. Mol. Biol. 292, 1149-1160 (1999). Abstract
  19. A. A. Podtelezhnikov and A. V. Vologodskii. Simulations of polymer cyclization by Brownian Dynamics, Macromolecules 30, 6668-6673 (1997). Abstract
  20. A. A. Podtelezhnikov, A. V. Kurakin, A. V. Vologodskii and D. I. Cherny. Testing the quality of electron microscope mapping data for DNA molecules with sequence-specific ligands, Micron 25, 439-446 (1994). Abstract