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Computer Methods, Part C, Vol 487. Methods in Enzymology

  • ID: 1758837
  • Book
  • 696 Pages
  • Elsevier Science and Technology
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The combination of faster, more advanced computers and more quantitatively oriented biomedical researchers has recently yielded new and more precise methods for the analysis of biomedical data. These better analyses have enhanced the conclusions that can be drawn from biomedical data, and they have changed the way that experiments are designed and performed. This volume, along with the 2 previous Computer Methods volumes for the Methods in Enzymology serial, aims to inform biomedical researchers about recent applications of modern data analysis and simulation methods as applied to biomedical research.

  • Presents step-by-step computer methods and discusses the techniques in detail to enable their implementation in solving a wide range of problems
  • Informs biomedical researchers of the modern data analysis methods that have developed alongside computer hardware
  • Presents methods at the "nuts and bolts" level to identify and resolve a problem and analyze what the results mean

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  1. Predicting Fluorescence Lifetimes and Spectra of Biopolymers

    Patrik R. Callis

  2. Modeling of Regulatory Networks: Theory and Applications in the study of the Drosophila Circadian Clock

    Elizabeth Y. Scribner, Hassan M. Fathallah-Shaykh

  3. Strategies for articulated multibody-based adaptive coarse grain simulation of RNA

    Mohammad Poursina, Kishor D. Bhalerao, Samuel C. Flores , Kurt S. Anderson, Alain Laederach

  4. Modeling Loop Entropy

    Gregory S. Chirikjian

  5. Inferring Functional Relationships and Causal Network Structure from Gene Expression Profiles

    Radhakrishnan Nagarajan

  6. Numerical solution of the chemical master equation: uniqueness and stability of the stationary distribution for chemical networks, and mRNA bursting in a gene network with negative feedback regulation

    E. S. Zeron, M. Santill_an

  7. How molecular should your molecular model be? On the level of molecular detail required to simulate biological networks in systems and synthetic biology

    Didier Gonze, Wassim Abou-Jaoud´e, Adama Ouattara, and Jos´e Halloy

  8. Computational modelling of biological pathways by executable biology

    Maria Luisa Guerriero John K. Heath

  9. Computing Molecular Fluctuations in Biochemical Reaction Systems Based on A Mechanistic, Statisitical Theory of Irreversible Processes

    Don Kulasiri

  10. Probing the input-output behaviour of biochemical and genetic systems: system identification methods from control theory

    David McMillen, Brian Ingalls, Jordan Ang

  11. Biochemical pathway modelling tools for drug target detection in cancer and other complex diseases

    Alberto Marin-Sanguino, Shailendra K. Gupta, Eberhard O. Voit and Julio Vera

  12. Deterministic and Stochastic Simulation and Analysis of Biochemical Reaction Networks: The Lactose Operon Example

    Necmettin Yildirim, Caner Kazanci F

  13. Multivariate Neighborhood Sample Entropy: A method for data reduction and prediction of complex data.

    Joshua S. Richman MD, PhD

  14. Scaling differences of heartbeat excursions between wake and sleep periods

    L. Guzm´an-Vargas, I. Reyes-Ram´irez, R. Hern´andez-P´erez, F. Angulo-Brown

  15. Changepoint analysis for single-molecule polarized totalinternal reflection fluorescence microscopy experiments

    John F. Beausang, Yale E. Goldman, and Philip C. Nelson

  16. Inferring mechanisms from dose-response curves

    Carson C. Chow, Karen M. Ong, Edward J. Dougherty, and S. Stoney Simons, Jr.

  17. Spatial Aspects in Biological System Simulations

    Haluk Resat, Michelle N. Costa, and Harish Shankaran

  18. Computational Approaches to Modeling Viral Structure and Assembly

    Stephen C. Harvey, Anton S. Petrov, Batsal Devkota and Mustafa Burak Boz

  19. An Object-Oriented Software Suite for the Simulation and Design of Macromolecules

    Andrew Leaver-Fay, Michael Tyka, Steven M. Lewis, Oliver F. Lange, James Thompson, Ron Jacak, Kristian Kaufman, P. Douglas Renfrew, Colin A. Smith, Will Sheffler, Ian W. Davis, Seth Cooper, Adrien Treuille, Daniel J. Mandell, Florian Richter, Yih-En Andrew Ban, Sarel J. Fleishman, Jacob E. Corn, David E. Kim, Sergey Lyskov, Monica Berrondo, Stuart Mentzer, Zoran Popovic, James J. Havranek, John Karanicolas, Rhiju Das, Jens Meiler, Tanja Kortemme, Jeffrey J. Gray, Brian Kuhlman1, David Baker, and Philip Bradley

  20. Computational Design of Intermolecular Stability and Specificity in Protein Self-Assembly

Vikas Nanda, Sohail Zahid, Fei Xu, Daniel Levine

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Simon, Melvin I.

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