Automated Analysis of NF-κB Nuclear Translocation Kinetics in High-Throughput Screening

PLoS ONE

Volumn 7, Issue 12, 2012, Pages

  Di, Zi ^a   Herpers, Bram ^a   Fredriksson, Lisa ^a   Yan, Kuan ^b   van de Water, Bob ^a   Verbeek, Fons J ^b   Meerman, John H N ^a  

^a LEIDEN UNIVERSITY   (Netherlands)

^b LEIDEN UNIVERSITY   (Netherlands)

Author keywords

[No Author keywords available]

Indexed keywords

I KAPPA B ALPHA; IMMUNOGLOBULIN ENHANCER BINDING PROTEIN;

ACCURACY; ARTICLE; AUTOANALYSIS; CELL POPULATION; CELL TRACKING; CONTROLLED STUDY; FUNCTIONAL GENOMICS; HIGH THROUGHPUT SCREENING; IMAGE ANALYSIS; IMAGE PROCESSING; INHIBITION KINETICS; LIMIT OF QUANTITATION; MATHEMATICAL COMPUTING; OSCILLATORY POTENTIAL; PROTEIN TRANSPORT; QUANTITATIVE ANALYSIS; VALIDATION PROCESS;

ACTIVE TRANSPORT, CELL NUCLEUS; ALGORITHMS; AUTOMATION; CELL NUCLEUS; CELL SHAPE; CLUSTER ANALYSIS; HEP G2 CELLS; HUMANS; IMAGE PROCESSING, COMPUTER-ASSISTED; KINETICS; MOLECULAR IMAGING; NF-KAPPA B; TUMOR NECROSIS FACTOR-ALPHA;

EID: 84871643467     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0052337     Document Type: Article

References (36)

1. Gilmore TD, (2006) Introduction to NF-kappaB: players, pathways, perspectives. Oncogene 25: 6680-6684.
2. Brasier AR, (2006) The NF-kappaB regulatory network. Cardiovasc Toxicol 6: 111-130.
3. Perkins ND, (2007) Integrating cell-signalling pathways with NF-kappaB and IKK function. Nat Rev Mol Cell Biol 8: 49-62.
4. Gilmore TD, (1999) The Rel/NF-kappaB signal transduction pathway: introduction. Oncogene 18: 6842-6844.
5. Tian B, Brasier AR, (2003) Identification of a nuclear factor kappa B-dependent gene network. Recent Prog Horm Res 58: 95-130.
6. DiDonato JA, Hayakawa M, Rothwarf DM, Zandi E, Karin M, (1997) A cytokine-responsive IkappaB kinase that activates the transcription factor NF-kappaB. Nature 388: 548-554.
7. Jiang X, Takahashi N, Matsui N, Tetsuka T, Okamoto T, (2003) The NF-kappa B activation in lymphotoxin beta receptor signaling depends on the phosphorylation of p65 at serine 536. J Biol Chem 278: 919-926.
8. Sakurai H, Chiba H, Miyoshi H, Sugita T, Toriumi W, (1999) IkappaB kinases phosphorylate NF-kappaB p65 subunit on serine 536 in the transactivation domain. J Biol Chem 274: 30353-30356.
9. Sun SC, Ganchi PA, Ballard DW, Greene WC, (1993) NF-kappa B controls expression of inhibitor I kappa B alpha: evidence for an inducible autoregulatory pathway. Science 259: 1912-1915.
10. Tay S, Hughey JJ, Lee TK, Lipniacki T, Quake SR, et al. (2010) Single-cell NF-kappaB dynamics reveal digital activation and analogue information processing. Nature 466: 267-271.
11. Ashall L, Horton CA, Nelson DE, Paszek P, Harper CV, et al. (2009) Pulsatile Stimulation Determines Timing and Specificity of NF-kappa B-Dependent Transcription. Science 324: 242-246.
12. Covert MW, Leung TH, Gaston JE, Baltimore D, (2005) Achieving stability of lipopolysaccharide-induced NF-kappa B activation. Science 309: 1854-1857.
13. Lee TK, Denny EM, Sanghvi JC, Gaston JE, Maynard ND, et al. (2009) A noisy paracrine signal determines the cellular NF-kappaB response to lipopolysaccharide. Sci Signal 2: ra65.
14. Paszek P, Ryan S, Ashall L, Sillitoe K, Harper CV, et al. (2010) Population robustness arising from cellular heterogeneity. Proc. Natl. Acad. Sci. U. S. A 107: 11644-11649.
15. Turner DA, Paszek P, Woodcock DJ, Nelson DE, Horton CA, et al. (2010) Physiological levels of TNFalpha stimulation induce stochastic dynamics of NF-kappaB responses in single living cells. J Cell Sci 123: 2834-2843.
16. Nelson DE, Ihekwaba AE, Elliott M, Johnson JR, Gibney CA, et al. (2004) Oscillations in NF-kappaB signaling control the dynamics of gene expression. Science 306: 704-708.
17. Lee TK, Covert MW, (2010) High-throughput, single-cell NF-kappaB dynamics. Curr Opin Genet Dev 20: 677-683.
18. Haddad RA, Akansu AN, (1991) A Class of Fast Gaussian Binomial Filters for Speech and Image-Processing. IEEE Trans Image Process 39: 723-727.
19. Sternberg SR, (1983) Biomedical Image-Processing. Computer 16: 22-34.
20. Mount E, (2005) Nonlinear signal processing; a statistical approach. Sci-Tech News 59: 53-54.
21. Yan K, Verbeek FJ (2012) Segmentation for High-Throughput Image Analysis: Watershed Masked Clustering. In: Margaria T, Steffen B, editors. Leveraging Applications of Formal Methods, Verification and Validation. Applications and Case Studies. Lecture Notes in Computer Science Volume 7610. Berlin: Springer Verlag. 25-41.
22. Le Devedec SE, Yan KA, de Bont H, Ghotra V, Truong H, et al. (2010) Systems microscopy approaches to understand cancer cell migration and metastasis. Cell Mol Life Sci 67: 3219-3240.
23. MacQueen (1967) Some Methods for classification and Analysis of Multivariate Observations. In: Le Cam LM, Neyman J, editors. Proceedings of the Fifth Berkeley Symposium on Mathematical Statistics and Probability, Volume 1: Statistics. Berkeley CA: University of California Press. 281-297.
24. Tang C, Bengtsson E (2005) Automatic Tracking of Neural Stem Cells. In: Lovell BC, Maeder AJ, editors. Proceedings of WDIC 2005, The Australian Pattern Recognition Society. St. Lucia QLD: The University of Queensland. 61-66.
25. Voronoi G, (1907) Nouvelles applications des paramètres continus à la théorie des formes quadratiques. J. Reine Angew. Math. 133: 97-178.
26. Verbeek FJ (1995) Three dimensional reconstruction from serial sections including deformation correction. PhD Thesis. Delft: Delft University of Technology. 85 p.
27. Verbeek FJ (2000) Theory and practice of 3D-reconstructions from serial sections. In: Baldock RA, Graham J, editors. Image Processing, A Practical Approach. Oxford: Oxford University Press. 153-195.
28. Stevens J (1996) Applied multivariate statistics for the social sciences. Mahwah, NJ: Lawrence Erlbaum Associates. 659 p.
29. Zhang JH, Chung TD, Oldenburg KR, (1999) A Simple Statistical Parameter for Use in Evaluation and Validation of High Throughput Screening Assays. J Biomol Screen 4: 67-73.
30. Fisher RA, (1936) The Use of Multiple Measurements in Taxonomic Problems. Ann Eugen 7: 179-188.
31. McLachlan GJ (2004) Discriminant Analysis and Statistical Pattern Recognition. Hoboken NJ: John Wiley and Sons Inc. 63 p.
32. Kummel A, Gubler H, Gehin P, Beibel M, Gabriel D, et al. (2010) Integration of Multiple Readouts into the Z ' Factor for Assay Quality Assessment. J Biomol Screen 15: 95-101.
33. Verbeek FJ, Rodrigues DD, Spaink H, Siebes A, (2003) Data submission of 3D image sets to a bio-molecular database using active shape models and a 3D reference model for projection. Proceedings SPIE 5304: 13-23.
34. Hayden MS, Ghosh S, (2008) Shared principles in NF-kappaB signaling. Cell 132: 344-362.
35. Kalita MK, Sargsyan K, Tian B, Paulucci-Holthauzen A, Najm HN, et al. (2011) Sources of Cell-to-cell Variability in Canonical Nuclear Factor-kappa B (NF-kappa B) Signaling Pathway Inferred from Single Cell Dynamic Images. J Biol Chem 286: 37741-37757.
36. Fredriksson L, Herpers B, Benedetti G, Matadin Q, Puigvert JC, et al. (2011) Diclofenac inhibits tumor necrosis factor alpha-induced nuclear factor-kappaB activation causing synergistic hepatocyte apoptosis. Hepatology 53: 2027-2041.