Table of Contents Author Guidelines Submit a Manuscript
Computational and Mathematical Methods in Medicine
Volume 2016, Article ID 3516089, 9 pages
http://dx.doi.org/10.1155/2016/3516089
Research Article

A Run-Length Encoding Approach for Path Analysis of C. elegans Search Behavior

1School of Computing, College of Computing and Digital Media, DePaul University, Chicago, IL 60604, USA
2Department of Cell Biology and Anatomy, Chicago Medical School, Rosalind Franklin University, North Chicago, IL 60064-3095, USA

Received 16 February 2016; Accepted 29 May 2016

Academic Editor: Weidong Cai

Copyright © 2016 Li Huang et al. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

Linked References

  1. D. D. Shaye and I. Greenwald, “OrthoList: a compendium of C. elegans genes with human orthologs,” PLoS ONE, vol. 6, no. 5, Article ID e20085, 2011. View at Publisher · View at Google Scholar
  2. J. Y. Sze, M. Victor, C. Loer, Y. Shi, and G. Ruvkun, “Food and metabolic signalling defects in a Caenorhabditis elegans serotonin-synthesis mutant,” Nature, vol. 403, no. 6769, pp. 560–564, 2000. View at Publisher · View at Google Scholar · View at Scopus
  3. D. L. Chase and M. R. Koelle, “Biogenic amine neurotransmitters in C. elegans,” WormBook, vol. 20, pp. 1–15, 2007. View at Google Scholar
  4. K. Andre, O. Kampman, M. Viikki et al., “TPH-1 A218C polymorphism and temperament in major depression,” BMC Psychiatry, vol. 13, article 118, 2013. View at Publisher · View at Google Scholar · View at Scopus
  5. D. Ramot, B. E. Johnson, T. L. Berry Jr., L. Carnell, and M. B. Goodman, “The parallel worm tracker: a platform for measuring average speed and drug-induced paralysis in nematodes,” PLoS ONE, vol. 3, no. 5, Article ID e2208, 2008. View at Publisher · View at Google Scholar · View at Scopus
  6. A. M. Leifer, C. Fang-Yen, M. Gershow, M. J. Alkema, and A. D. T. Samuel, “Optogenetic manipulation of neural activity in freely moving Caenorhabditis elegans,” Nature Methods, vol. 8, no. 2, pp. 147–152, 2011. View at Publisher · View at Google Scholar · View at Scopus
  7. S. Faumont, G. Rondeau, T. R. Thiele et al., “An image-free opto-mechanical system for creating virtual environments and imaging neuronal activity in freely moving caenorhabditis elegans,” PLoS ONE, vol. 6, no. 9, Article ID e24666, 2011. View at Publisher · View at Google Scholar · View at Scopus
  8. J. Ben Arous, Y. Tanizawa, I. Rabinowitch, D. Chatenay, and W. R. Schafer, “Automated imaging of neuronal activity in freely behaving Caenorhabditis elegans,” Journal of Neuroscience Methods, vol. 187, no. 2, pp. 229–234, 2010. View at Publisher · View at Google Scholar · View at Scopus
  9. K. Moy, W. Li, H. P. Tran et al., “Computational methods for tracking, quantitative assessment, and visualization of C. elegans locomotory behavior,” PLoS ONE, vol. 10, no. 12, Article ID e0145870, 2015. View at Publisher · View at Google Scholar · View at Scopus
  10. C. M. Loer and C. J. Kenyon, “Serotonin-deficient mutants and male mating behavior in the nematode Caenorhabditis elegans,” The Journal of Neuroscience, vol. 13, no. 12, pp. 5407–5417, 1993. View at Google Scholar · View at Scopus
  11. J. E. Tanis, J. J. Moresco, R. A. Lindquist, and M. R. Koelle, “Regulation of serotonin biosynthesis by the G proteins Gαo and Gαq controls serotonin signaling in Caenorhabditis elegans,” Genetics, vol. 178, no. 1, pp. 157–169, 2008. View at Publisher · View at Google Scholar · View at Scopus
  12. L. E. Waggoner, G. T. Zhou, R. W. Schafer, and W. R. Schafer, “Control of alternative behavioral states by serotonin in Caenorhabditis elegans,” Neuron, vol. 21, no. 1, pp. 203–214, 1998. View at Publisher · View at Google Scholar · View at Scopus
  13. E. R. Sawin, R. Ranganathan, and H. R. Horvitz, “C. elegans locomotory rate is modulated by the environment through a dopaminergic pathway and by experience through a serotonergic pathway,” Neuron, vol. 26, no. 3, pp. 619–631, 2000. View at Publisher · View at Google Scholar · View at Scopus
  14. S. W. Flavell, N. Pokala, E. Z. Macosko, D. R. Albrecht, J. Larsch, and C. I. Bargmann, “Serotonin and the neuropeptide PDF initiate and extend opposing behavioral states in C. elegans,” Cell, vol. 154, no. 5, pp. 1023–1035, 2013. View at Publisher · View at Google Scholar · View at Scopus
  15. V. Padmanabhan, Z. S. Khan, D. E. Solomon et al., “Locomotion of C. elegans: a piecewise-harmonic curvature representation of nematode behavior,” PLoS ONE, vol. 7, no. 7, Article ID e40121, 2012. View at Publisher · View at Google Scholar · View at Scopus
  16. J. M. Gray, J. J. Hill, and C. I. Bargmann, “A circuit for navigation in Caenorhabditis elegans,” Proceedings of the National Academy of Sciences of the United States of America, vol. 102, no. 9, pp. 3184–3191, 2005. View at Publisher · View at Google Scholar · View at Scopus
  17. R. O. Duda, P. E. Hart, and D. G. Stork, Pattern Classification, John Wiley & Sons, New York, NY, USA, 2000.
  18. X. Tang, “Texture information in run-length matrices,” IEEE Transactions on Image Processing, vol. 7, no. 11, pp. 1602–1609, 1998. View at Publisher · View at Google Scholar · View at Scopus
  19. D.-H. Xu, A. S. Kurani, J. D. Furst, and D. S. Raicu, “Run-length encoding for volumetric,” in Proceedings of the 4th IASTED International Conference on Visualization, Imaging, and Image Processing, 2004.
  20. I. Martinez, Using the Run Length Encoding Features on the MPC5645S, Freescale Semiconductor, 2011.
  21. I. Rhee, M. Shin, S. Hong, K. Lee, S. J. Kim, and S. Chong, “On the Levy-walk nature of human mobility,” IEEE/ACM Transactions on Networking, vol. 19, no. 3, pp. 630–643, 2011. View at Publisher · View at Google Scholar · View at Scopus
  22. L. Breiman, “Random forests,” Machine Learning, vol. 45, no. 1, pp. 5–32, 2001. View at Publisher · View at Google Scholar · View at Scopus
  23. L. Luo, D. A. Clark, D. Biron, L. Mahadevan, and A. D. T. Samuel, “Sensorimotor control during isothermal tracking in Caenorhabditis elegans,” Journal of Experimental Biology, vol. 209, no. 23, pp. 4652–4662, 2006. View at Publisher · View at Google Scholar · View at Scopus
  24. Y. Ino and K. Yoshida, “Parallel use of two behavioral mechanisms for chemotaxis in Caenorhabditis elegans,” The Journal of Neuroscience, vol. 29, no. 17, pp. 5370–5380, 2009. View at Publisher · View at Google Scholar · View at Scopus
  25. G. J. Stephens, B. Johnson-Kerner, W. Bialek, and W. S. Ryu, “From modes to movement in the behavior of Caenorhabditis elegans,” PLoS ONE, vol. 5, no. 11, Article ID e13914, 2010. View at Publisher · View at Google Scholar · View at Scopus
  26. D. Kim, S. Park, L. Mahadevan, and J. H. Shin, “The shallow turn of a worm,” Journal of Experimental Biology, vol. 214, no. 9, pp. 1554–1559, 2011. View at Publisher · View at Google Scholar · View at Scopus