Parsimonious regularization using genetic algorithms applied to the analysis of analytical ultracentrifugation experiments

Proceedings of GECCO 2007: Genetic and Evolutionary Computation Conference

Volumn , Issue , 2007, Pages 361-368

  Brookes, Emre H ^a   Demeler, Borries ^b  

^a University of Texas at San Antonio   (United States)

^b Mays Cancer Center at UT Health San Antonio   (United States)

Author keywords

Analytical ultracentrifugation; Genetic algorithm; Inverse problem; Regularization

Indexed keywords

CENTRIFUGATION; COMPUTER SIMULATION; INVERSE PROBLEMS; MATHEMATICAL MODELS; PARAMETER ESTIMATION;

ANALYTICAL ULTRACENTRIFUGATION; MODEL PARAMETERS; REGULARIZATION; SIMULATED DATA;

GENETIC ALGORITHMS;

EID: 34548101735     PISSN: None     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.1145/1276958.1277035     Document Type: Conference Paper

References (19)

1. H. Akaike. A new look at the statistical model identification. In IEEE Transactions on Automatic Control, volume 19, pages 716-723. IEEE, 1974.
2. R. C. Aster, B. Borchers, and C. H. Thurber. Parameter Estimation and Inverse Problems. Elsevier Academic Press, London, 2005.
3. E. H. Brookes, R. V. Boppana, and B. Demeler. Computing large sparse multivariate optimization problems with an application in biophysics. In SuperComputing 2006 Conference Proceedings. ACM, IEEE, November 2006.
4. E. H. Brookes and B. Demeler. Genetic algorithm optimization for obtaining accurate molecular weight distributions for sedimentation velocity experiments. In Analytical Ultracentrifugation VIII, Progr. Colloid Polym Sci. 131, pages 78-82. Springer-Verlag, 2006.
5. P. H. Brown and P. Schuck. Macromolecular size-and-shape distributions by sedimentation velocity analytical ultracentrifugation. Biophysical Journal, 90:4651-4661, June 2006.
6. W. Cao and B. Demeler. Modeling analytical ultracentrifugation experiments with an adaptive space-time fine element solution of the lamm equation. In Biophys J., volume 83, pages 1589-1602, 2005.
7. J. L. Cole and J. C. Hansen. Analytical ultracentrifugation as a contemporary biomolecular research tool. In J. Biomolecular Techniques, volume 10, pages 163-174, 1999.
8. B. Demeler. Hydrodynamic Methods. In Bioinformatics Basics: Applications in Biological Science and Medicine. 2nd Edition, pages 226-255. CRC Press LLC, 2005.
9. B. Demeler. UltraScan: A Comprehensive Data Analysis Software Package for Analytical Ultracentrifugation Experiments. In Modern Analytical Ultracentrifugation: Techniques and Methods, pages 210-229. Royal Society of Chemistry, UK, 2005.
10. B. Demeler et al. Center for analytical ultracentrifugation of macromolecular assemblies. http://bcf.uthscsa.edu/cauma.
11. B. Demeler and K. E. van Holde. Sedimentation velocity analysis of highly heterogeneous systems. In Anal. Biochem., volume 335, pages 279-288, 2004.
12. J. H. Holland. Adaptation in Natural and Artificial Systems, 2nd Edition. MIT Press, Cambridge, MA, 1992.
13. J. R. Koza. Genetic Programming. MIT Press, Cambridge, MA, 1992.
14. O. Lamm. Die differentialgleichung der ultrazentrifugierung. In Ark. Mat. Astrol. Fys., volume 21B, pages 1-4, 1929.
15. C. L. Lawson and R. J. Hanson. Solving Least Squares Problems. Prentice Hall, New Jersey, 1974.
16. P. Schuck. Size-distribution anal, of macromolecules by sedimentation velocity ultracentrifugation and lamm equation modeling. In Biophys. J., volume 78, pages 1609-1619, 2000.
17. P. Schuck and B. Demeler. Direct sedimentation analysis of interference optical data in analytical ultracentrifugation. In Biophys. J., volume 76, pages 2288-2296, 1999.
18. K. van Holde. Physical Biochemistry, 2nd Edition. Prentice Hall, New Jersey, 1985.
19. D. H. Wolpert and W. G. Macready. No free lunch theorems for optimization. In IEEE Transactions on Evolutionary Computation, volume 1, pages 67-82. IEEE, 1997.