Local cell metrics: A novel method for analysis of cell-cell interactions

BMC Bioinformatics

Volumn 10, Issue , 2009, Pages 350-

  Su, Jing ^a   Zapata, Pedro J ^b   Chen, Chien Chiang ^b   Meredith, J Carson ^b  

^a GEORGIA INSTITUTE OF TECHNOLOGY   (United States)

^b Georgia Institute of Technology   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ANALYSIS STRATEGIES; CELL-CELL INTERACTION; CONTACT INTERACTION; DEVELOPMENTAL BIOLOGY; FLUORESCENCE IMAGING; PROBABILISTIC DESCRIPTIONS; PROBABILITY FUNCTIONS; SENSITIVE DETECTION;

CELL CULTURE; FLUORESCENCE; POLYMETHYL METHACRYLATES;

CELLS;

ANALYTIC METHOD; ANIMAL CELL; ARTICLE; CELL INTERACTION; CELL PROLIFERATION; CELL TYPE; CONTROLLED STUDY; DATA ANALYSIS; DATA MINING; FLUORESCENCE IMAGING; HISTOGRAM; LOCAL CELL METRIC; MOUSE; NONHUMAN; OSTEOBLAST; QUANTITATIVE ANALYSIS;

BAYES THEOREM; CELL COMMUNICATION; CELL PROLIFERATION; IMAGE PROCESSING, COMPUTER-ASSISTED; PATTERN RECOGNITION, AUTOMATED;

EID: 67650964697     PISSN: None     EISSN: 14712105     Source Type: Journal    
DOI: 10.1186/1471-2105-10-350     Document Type: Article

References (48)

1. Artavanis-Tsakonas S, Matsuno K, Fortini M. Notch signaling. Science 1995, 5208:225-232.
2. Castor LN. Contact Inhibitions of Cell Division and Cell Movement. J Investig Dermatol 1972, 59(1):27-32. 10.1111/1523-1747.ep12625732, 5039959.
3. Caveda L, Martin-Padura I, Navarro P, Breviario F, Corada M, Gulino D, Lampugnani MG, Dejana E. Inhibition of Cultured Cell Growth by Vascular Endothelial Cadherin (Cadherin-5/VE-Cadherin). Journal of Clinical Investigation 1996, 98(4):886-893. 10.1172/JCI118870, 507501, 8770858.
4. Charrasse S, Comunale F, Gilbert E, Delattre O, Gauthier-Rouviere C. Variation in cadherins and catenins expression is linked to both proliferation and transformation of Rhabdomyosarcoma. Oncogene 2004, 23(13):2420-2430. 10.1038/sj.onc.1207382, 14691446.
5. Grego-Bessa L, Luna-Zurita G, del Monte V, Bolós P, Melgar A, Arandilla A, Garratt H, Zang Y, Mukouyama HC. Notch Signaling Is Essential for Ventricular Chamber Development. Developmental Cell 2007, 12:415-429. 10.1016/j.devcel.2006.12.011, 2746361, 17336907.
6. Hirano S, Nose A, Hatta K, Kawakami A, Takeichi M. Calcium-dependent cell-cell adhesion molecules (cadherins): subclass specificities and possible involvement of actin bundles. J Cell Biol 1987, 105(6):2501-2510. 10.1083/jcb.105.6.2501, 2114731, 3320048.
7. Kandikonda S, Oda D, Niederman R, Sorkin BC. Cadherin-Mediated Adhesion Is Required for Normal Growth Regulation of Human Gingival Epithelial Cells. Cell Communication & Adhesion 1996, 4(1):13-24.
8. Levenberg S, Katz BZ, Yamada KM, Geiger B. Long-range and selective autoregulation of cell-cell or cell-matrix adhesions by cadherin or integrin ligands. Journal of Cell Science 1998, 111(3):347-357.
9. Levenberg S, Sadot E, Goichberg P, Geiger B. Cadherin-mediated transmembrane interactions. Cell Adhes Commun 1998, 6(2-3):161-170.
10. Mary S, Charrasse S, Meriane M, Comunale F, Travo P, Blangy A, Gauthier-Rouviere C. Biogenesis of N-Cadherin-dependent Cell-Cell Contacts in Living Fibroblasts Is a Microtubule-dependent Kinesin-driven Mechanism. Molecular Biology of the Cell 2002, 13(1):285-301. 65089, 11809840.
11. Nakatsuji Y, Miller RH. Density dependent modulation of cell cycle protein expression in astrocytes. Journal of Neuroscience Research 2001, 66(3):487-496.
12. Nelson CM, Chen CS. Cell-cell signaling by direct contact increases cell proliferation via a PI3K-dependent signal. FEBS Letters 2002, 514:238-242.
13. St Croix B, Sheehan C, Rak JW, Florenes VA, Slingerland JM, Kerbel RS. E-Cadherin-dependent Growth Suppression is Mediated by the Cyclin-dependent Kinase Inhibitor p27KIP1. J Cell Biol 1998, 142(2):557-571. 2133056, 9679152.
14. Stoker MGP, Rubin H. Density Dependent Inhibition of Cell Growth in Culture. Nature 1967, 215(5097):171-172.
15. Warchol ME. Cell Density and N-Cadherin Interactions Regulate Cell Proliferation in the Sensory Epithelia of the Inner Ear. Journal of Neuroscience 2002, 22(7):2607-2616.
16. Zegers MMP, Forget M-A, Chernoff J, Mostov KE, Beest M, Hansen SH. Pak1 and PIX regulate contact inhibition during epithelial wound healing. The EMBO Journal 2003, 22:4155-4165. 175788, 12912914.
17. Broderick S, Suh C, Nowers J, Vogel B, Mallapragada S, Narasimhan B, Rajan K. Informatics for combinatorial materials science. Journal of the Minerals, Metals and Materials Society 2008, 60:56-59.
18. Kennedy S, Washburn N, Simon C, Amis E. Combinatorial screen of the effect of surface energy on fibronectin-mediated osteoblast adhesion, spreading and proliferation. Biomaterials 2006, 27:3817-3824.
19. Kohn J. New approaches to biomaterials design. Nature Materials 2004, 3:745-747.
20. Meredith JC. Advances in Combinatorial and High-Throughput Screening of Biofunctional Polymers for Gene Delivery, Tissue Engineering and Anti-Fouling Coatings. Journal of Materials Chemistry 2009, 19:34-45.
21. Meredith JC, Sormana JL, Keselowsky BG, Garcia AJ, Tona A, Karim A, Amis EJ. Combinatorial characterization of cell interactions with polymer surfaces. J Biomed Mater Res A 2003, 66(3):483-490.
22. Su J, Meredith JC. Local Histogram Analysis: Detecting Cell-Microstructure Interactions on Combinatorial Biomaterial Libraries. Combinatorial Chemistry and High-Throughput Screening 2009, 12:626-633.
23. Su J, Zapata P, Meredith JC. Knowledge Discovery Applications in High-Throughput Polymer Characterization. Combinatorial Methods and Informatics in Materials Science 2006, Warrendale, PA: Materials Research Society, Fasolka M, 0894-LL0805-0804.
24. Abercrombie M, Ambrose EJ. Interference microscope studies of cell contacts in tissue culture. Experimental Cell Research 1958, 15(2):332-345.
25. Abercrombie M, Heaysman JEM. Observations on the social behaviour of cells in tissue culture: II. "Monolayering" of fibroblasts. Experimental Cell Research 1954, 6(2):293-306.
26. Abercrombie M, Heaysman JEM, Karthauser HM. Social behaviour of cells in tissue culture III. Mutual influence of sarcoma cells and fibroblasts. Experimental Cell Research 1957, 13(2).
27. Bremnes RM, Veve R, Hirsch FR, Franklin WA. The E-cadherin cell-cell adhesion complex and lung cancer invasion, metastasis, and prognosis. Lung Cancer 2002, 36(2):115-124.
28. Sharma VM, Draheim KM, Kelliher MA. The Notch1/c-Myc pathway in T cell leukemia. Cell Cycle 2007, 6:927-930.
29. Liu Z-J, Shirakawa T, L Y, Soma A, Oka M, Dotto GP, Fairman RM, Velazquez OC, Herlyn M. Regulation of Notch1 and Dll4 by Vascular Endothelial Growth Factor in Arterial Endothelial Cells: Implications for Modulating Arteriogenesis and Angiogenesis. Mol Cell Biol 2003, 23:14-25. 140667, 12482957.
30. Burke JM. Cell-cell contact promotes DNA synthesis in retinal glia but not in fibroblasts. Exp Cell Res 1983, 146(1):204-206.
31. Burke JM. Growth in retinal glial cells in vitro is affected differentially by two types of cell contact-mediated interactions. Exp Cell Res 1989, 180(1):13-19.
32. Gaunt SJ, Subak-Sharpe JH. Cell cycle variation associated with feeder effects in cultures of Chinese hamster fibroblasts. Exp Cell Res 1977, 109(2):341-348.
33. Polyak K, Kato JY, Solomon MJ, Sherr CJ, Massague J, Roberts JM, Koff A. p27Kip1, a cyclin-Cdk inhibitor, links transforming growth factor-beta and contact inhibition to cell cycle arrest. Genes Dev 1994, 8(1):9-22.
34. Kodama H, Amagai Y, Sudo H, Kasai S, Yamamoto S. Establishment of a clonal osteogenic cell line from newborn mouse calvaria. Japanese Journal of Oral Biology 1981, 23:899-901.
35. Sudo H, Kodama HA, Amagai Y, Yamamoto S, Kasai S. In vitro differentiation and calcification in a new clonal osteogenic cell line derived from newborn mouse calvaria. The Journal of Cell Biology 1983, 96(1):191-198. 2112252, 6826647.
36. Choi JY, Lee BH, Song KB, Park RW, Kim IS, Sohn KY, Jo JS, Ryoo HM. Expression patterns of bone-related proteins during osteoblastic differentiation in MC3T3-E1 cells. Journal Of Cellular Biochemistry 1996, 61(4):609-618.
37. Sodek J, Berkman FA. Bone cell cultures. Methods Enzymol 1987, 145:303-324.
38. Wang D, Christensen K, Chawla K, Xiao G, Krebsbach PH, Franceschi RT. Isolation and characterization of MC3T3-E1 preosteoblast subclones with distinct in vitro and in vivo differentiation/mineralization potential. J Bone Miner Res 1999, 14(6):893-903.
39. Qian X, Karpova T, Sheppard AM, McNally J, Lowy DR. E-cadherin-mediated adhesion inhibits ligand-dependent activation of diverse receptor tyrosine kinases. EMBO J 2004, 23(8):1739-1748. 394229, 15057284.
40. Magid A, Rotman SR, Weiss AM. Comments on Picture thresholding using an iterative selectionmethod. ystems, Man and Cybernetics, IEEE Transactions on 1990, 20(5):1238-1239.
41. Meyer F, Beucher S. Morphological segmentation. Journal of Visual Communication and Image Representation 1990, 1(1):21-46.
42. Ridler TW, Calvard S. Picture thresholding using an iterative selection method. IEEE Transactions on Systems, Man and Cybernetics 1978, SMC-8(8):630-632.
43. Sezgin M, Sankur B. Survey over image thresholding techniques and quantitative performance evaluation. Journal of Electronic Imaging 2004, 13(1):146-168.
44. Trussell HJ. Comments on 'Picture thresholding using an iterative selection method'. IEEE Transactions on Systems, Man and Cybernetics 1979, SMC-9(5):311.
45. Yanni MK, Horne E. A new approach to dynamic thresholding. Eur Assoc Signal Process: Edinburgh, UK 1994, 34-41.
46. Carlin BP, Louis TA. Bayes and Empirical Bayes methods for data analysis. 2000, 47. Taylor & Francis CRC Press.
47. French S, Smith JQ. The practice of Bayesian analysis. 1997, New York: J. Wiley & Sons.
48. Martin JY, Schwartz Z, Hummert TW, Schraub DM, Simpson J, Lankford J, Dean DD, Cochran DL, Boyan BD. Effect of Titanium Surface-Roughness on Proliferation, Differentiation, and Protein-Synthesis of Human Osteoblast-Like Cells (Mg63). Journal of Biomedical Materials Research 1995, 29(3):389-401.