Ligation-mediated PCR for chromatin-structure analysis of interphase and metaphase chromatin

Methods: A Companion to Methods in Enzymology

Volumn 11, Issue 2, 1997, Pages 253-263

  Hershkovitz, Maty ^a   Riggs, Arthur D ^a  

^a CITY OF HOPE NATIONAL MEDICAL CENTER   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BETA INTERFERON; DEOXYRIBONUCLEASE I; DIMETHYL SULFATE; PERMANGANATE POTASSIUM; PHOSPHOGLYCERATE KINASE;

ARTICLE; CARCINOMA CELL; CHROMATIN STRUCTURE; DNA FOOTPRINTING; GENE FUNCTION; HUMAN; HUMAN CELL; METAPHASE; METAPHASE CHROMOSOME; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; PROMOTER REGION;

EID: 0031079884     PISSN: 10462023     EISSN: None     Source Type: Journal    
DOI: 10.1006/meth.1996.0412     Document Type: Article

References (46)

1. 1. Galas, D. J., and Schmitz, A. (1978) Nucleic Acids Res. 5, 3157-3170.
2. 2. Church, G. M., Ephrussi, A., Gilbert, W., and Tonegawa, S. (1985) Nature 313, 798-801.
3. 3. Becker, P. B., Ruppert, S., and Schütz, G. (1987) Cell 51, 435-443.
4. 4. Saluz, H. P., and Jost, J. P. (1987) A Laboratory Guide to Genomic Sequencing, Birkhaeuser Verlag, Basel/Boston.
5. 5. Mueller, P. R., and Wold, B. (1989) Science 246, 780-786 [published erratum appears in Science 1990 May 18;248(4957), 802].
6. 6. Pfeifer, G. P., Steigerwald, S. D., Mueller, P. R., Wold, B., and Riggs, A. D. (1989) Science 246, 810-813.
7. 7. Pfeifer, G. P., Tanguay, R. L., Steigerwald, S. D., and Riggs, A. D. (1990) Genes Dev. 4, 1277-1287.
8. 8. Pfeifer, G. P., and Riggs, A. D. (1991) Genes Dev. 5, 1102-1113.
9. 9. Tornaletti, S., and Pfeifer, G. P. (1995) J. Mol. Biol. 249, 714-728.
10. 10. Pfeifer, G. P., Drouin, R., Riggs, A. D., and Holmquist, G. P. (1992) Mol. Cell. Biol. 12, 1798-1804.
11. 11. Paro, R. (1993) Curr. Opin. Cell Biol. 5, 999-1005.
12. 12. Alberts, B., Bray, D., Lewis, J., Roberts, K., and Watson, J. D. (1983) Molecular Biology of The Cell, Garland, New York.
13. 13. Riggs, A. D. (1989) Cell Biophys. 15, 1-13.
14. 14. Hershkovitz, M., and Riggs, A. D. (1995) Proc. Natl. Acad. Sci. USA 92, 2379-2383.
15. 15. Jost, J. P., and Saluz, H. P., Ed. (1993) DNA Methylation: Molecular Biology and Biological Significance, Birkhauser Verlag, Boston.
16. 16. Mielke, C., Kohwi, Y., Kohwi-Shigematsu, T., and Bode, J. (1990) Biochemistry 29, 7475-7485.
17. 17. Bode, J., Kohwi, Y., Dickinson, L., Joh, T., Klehr, D., Mielke, C., and Kohwi-Shigematsu, T. (1992) Science 255, 195-197.
18. 18. Evans, D. R., Irwin, R. J., Harve, P. A., Bouchard, J. G., Kato, T., and Prout, J. J. (1977) J. Virol. 117, 712-719.
19. 19. Ahlering, T. E., Dubeau, L., and Jones, P. A. (1987) Cancer Res. 47, 6660-6665.
20. 20. Klevecz, R. R. (1975) Methods Cell Biol. 10, 157-172.
21. 21. Martínez-Balbás, M. A., Dey, A., Rabindran, S. K., Ozato, K., and Wu, C. (1995) Cell 83, 29-38.
22. 22. Klevecz, R. R., and Braly, P. S. (1991) Ann. N.Y. Acad. Sci. 618, 257-276.
23. 23. McGhee, J. D., and Felsenfeld, G. (1979) Proc. Natl. Acad. Sci. USA 76, 2133-2137.
24. 24. Pfeifer, G. P., Singer-Sam, J., and Riggs, A. D. (1993) in Methods in Enzymology (Abelson, J., and Simon, M., Eds.), pp. 567-583, Academic Press, New York/London.
25. 25. Pfeifer, G. P., and Riggs, A. D. (1993) in Methods in Molecular Biology: PCR Protocols: Current Methods and Applications (Griffin, H., and Griffin, A., Eds.), pp. 153-168, Humana Press, Totowa, New Jersey.
26. 26. Sambrook, J., Fritsch, E. F., and Maniatis, T. (1989) Molecular Cloning: A Laboratory Manual, 2nd ed., Cold Spring Harbor Press, Cold Spring Harbor, NY.
27. 27. Garrity, P. A., and Wold, B. J. (1992) Proc. Natl. Acad. Sci. USA 89, 1021-1025.
28. 28. Hornstra, I. K., and Yang, T. P. (1993) Anal. Biochem. 213, 179-193.
29. 29. Smit, A. F. A., and Riggs, A. D. (1995) Nucleic Acids Res. 23, 98-102.
30. 30. Smit, A. F. A., Toth, G., Riggs, A. D., and Jurka, J. (1995) J. Mol. Biol. 246, 401-417.
31. 31. Rychlik, W., and Rhoads, R. E. (1989) Nucleic Acids Res. 17, 8543-8551.
32. 32. Tommasi, S., LeBon, J. M., Riggs, A. D., and Singer-Sam, J. (1993) Somat. Cell Mol. Genet. 19, 529-541.
33. 33. Rubin, C. M., and Schmid, C. W. (1980) Nucleic Acids Res. 8, 4613-4619.
34. 34. Hayatsu, H., and Ukita, T. (1967) Biochem. Biophys. Res. Commun. 29, 556-561.
35. 35. Zhang, L., and Gralla, J. D. (1989) Genes Dev. 3, 1814-1822.
36. 36. Lindsay, S., Hirayoshi, K., Fernandes, M., and Lis, J. T. (1995) Genes Dev. 9, 2756-2769.
37. 37. van Holde, K. E. (1988) Chromatin, Springer-Verlag, New York.
38. 38. Manuelidis, L. (1990) Science 250, 1533-1540.
39. 39. Raff, J. W., Kellum, R., and Alberts, B. (1994) EMBO J. 13, 5977-5983.
40. 40. Mielke, C., Kohwi, Y., Kohwi, S. T., and Bode, J. (1990) Biochemistry 29, 7475-7485.
41. 41. Singer-Sam, J., Robinson, M. O., Bellvé, A. R., Simon, M. I., and Riggs, A. D. (1990) Nucleic Acids Res. 18, 1255-1259.
42. 42. Jenssen-Eller, K., Picozza, E., and Crivello, J. F. (1994) BioTechniques 17, 962-973.
43. 43. Riggs, A. D., and Pfeifer, G. P. (1996) in In Vivo Footprinting (Cartwright, I. L., Ed.), JAI Press, Greenwich, CT, in press.
44. 44. Mirkovitch, J., Decker, T., and Darnell, J. E., Jr. (1992) Mol. Cell. Biol. 12, 1-9.
45. 45. Fisher-Adams, G., and Grunstein, M. (1995) EMBO J. 14, 1468-1477.
46. 46. McPherson, C., Shim, E., Friedman, D., and Zaret, K. (1993) Cell 75, 387-398.