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Locus Control Regions: Description in the LCR-TRRDatabase

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Abstract

The structural and functional organization of locus control regions (LCR) was analyzed using data of the LCR-TRRDatabase. The role of several transcription factors in the LCR function was considered. A study was made of the possible nucleosomal packing of enhancer regions in LCR. The structure and the format of LCR-TRRD are described. The database has been constructed for SRS and is available at http://wwwmgs.bionet.nsc.ru/mgs/dbases/LCR/

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References

  1. Carey, M. and Smale, S.T., Transcriptional Regulation in Eukaryotes, Cold Spring Harbor, N.Y.: Cold Spring Harbor Lab. Press, 1999.

    Google Scholar 

  2. Lachman, D.S., Eukaryotic Transcription Factors, London: Academic, 1995.

    Google Scholar 

  3. Palmiter, R.D. and Brinster, R.L., Annu. Rev. Genet., 1986, vol. 20, pp. 465–499.

    PubMed  Google Scholar 

  4. Kollias, G., Hurst, J., de Boer, E., and Grosveld, F., Nucleic Acids Res., 1987, vol. 15, pp. 5739–6747.

    PubMed  Google Scholar 

  5. Magram, J., Chada, K., and Costantini, F., Nature, 1985, vol. 315, pp. 338–340.

    PubMed  Google Scholar 

  6. Townes, T.M., Lingrel, J.B., Chen, H.Y., et al., EMBO J., 1985, vol. 4, pp. 1715–1723.

    PubMed  Google Scholar 

  7. Kioussis, D., Vanin, E., de Lange, T., et al., Nature, 1983, vol. 306, pp. 662–666.

    PubMed  Google Scholar 

  8. Grosveld, F., van Assendelft, G.B., Greaves, D.R., and Kollias, G., Cell, 1987, vol. 51, pp. 975–985.

    Article  PubMed  Google Scholar 

  9. Li, Q., Harju, S., and Peterson, K.R., Trends Genet., 1999, vol. 15, pp. 403–408.

    PubMed  Google Scholar 

  10. Kolchanov, N.A., Podkolodnaya, O.A., Ananko, E.A., et al., Nucleic Acids Res., 2000, vol. 28, pp. 298–301.

    PubMed  Google Scholar 

  11. Grosveld, F., Curr. Opin. Genet. Dev., 1999, vol. 9, pp. 152–157.

    PubMed  Google Scholar 

  12. Epner, E., Reik, A., Cimbora, D., et al., Mol. Cell, 1998, vol. 2, pp. 447–455.

    PubMed  Google Scholar 

  13. Reik, A., Telling, A., Zitnik, G., et al., Mol. Cell. Biol., 1998, vol. 18, pp. 5992–6000.

    PubMed  Google Scholar 

  14. Forrester, W.C., Epner, E., Driscoll, M.C., et al., Genes Dev., 1990, vol. 4, pp. 1637–1649.

    PubMed  Google Scholar 

  15. Aladjem, M.I., Groudine, M., Brody, L.L., et al., Science, 1995, vol. 270, pp. 815–819.

    PubMed  Google Scholar 

  16. Festenstein, R., Tolaini, M., Corbella, P., et al., Science, 1996, vol. 271, pp. 1123–1125.

    Google Scholar 

  17. Milot, E., Strouboulis, J., Trimborn, T., et al., Cell, 1996, vol. 87, pp. 105–111.

    PubMed  Google Scholar 

  18. Aronow, B.J., Silbiger, R.N., Dusing, M.R., et al., Mol. Cell. Biol., 1992, vol. 12, pp. 4170–4185.

    PubMed  Google Scholar 

  19. Ganss, R., Montoliu, L., Monaghan, A.P., and Schutz, G.A., EMBO J., 1994, vol. 13, pp. 3083–3093.

    PubMed  Google Scholar 

  20. Terajima, M., Nemoto, Y., and Obinata, M., J. Biochem., 1995, vol. 118, pp. 593–600.

    PubMed  Google Scholar 

  21. Wotton, D., Flanagan, B.F., and Owen, M.J., Proc. Natl. Acad. Sci. USA, 1989, vol. 86, p. 4195.

    PubMed  Google Scholar 

  22. Haynes, T.L., Thomas, M.B., Dusing, M.R., et al., Nucleic Acids Res., 1996, vol. 24, pp. 5034–5044.

    PubMed  Google Scholar 

  23. Santoso, B., Ortiz, B.D., and Winoto, A., J. Biol. Chem., 2000, vol. 275, pp. 1952–1958.

    PubMed  Google Scholar 

  24. Huang, B.L., Fan-Chiang, I.R., Wen, S.C., et al., Proc. Natl. Acad. Sci. USA, 1998, vol. 95, pp. 14669–14674.

    PubMed  Google Scholar 

  25. Chung, J.H., Whiteley, M., and Felsenfeld, G., Cell, 1993, vol. 74, pp. 505–514.

    PubMed  Google Scholar 

  26. Aronow, B.J., Ebert, C.A., Valerius, M.T., et al., Mol. Cell. Biol., 1995, vol. 15, pp. 1123–1235.

    PubMed  Google Scholar 

  27. Abruzzo, L.V. and Reitman, M., J. Biol. Chem., 1994, vol. 269, pp. 32 562–32 571.

    Google Scholar 

  28. Jackson, J.D., Petrykowska, H., Philipsen, S., et al., J. Biol. Chem., 1996, vol. 271, pp. 11871–11880.

    PubMed  Google Scholar 

  29. Ortiz, B.D., Cado, D., Chen, V., et al., EMBO J., 1997, vol. 16, pp. 5037–5045.

    PubMed  Google Scholar 

  30. Ellis, J., Talbot, D., Dillon, N., and Grosveld, F., EMBO J., 1993, vol. 12, pp. 127–134.

    PubMed  Google Scholar 

  31. Lake, R.A., Wotton, D., and Owen, M.J., EMBO J., 1990, vol. 9, pp. 3129–3136.

    PubMed  Google Scholar 

  32. Dillon, N., Trimborn, T., Strouboulis, J., et al., Mol. Cell, 1997, vol. 1, pp. 131–139.

    Article  PubMed  Google Scholar 

  33. Tanimoto, K., Liu, Q., Bungert, J., and Engel, J.D., Nature, 1999, vol. 398, pp. 344–348.

    Article  PubMed  Google Scholar 

  34. Fraser, P., Hurst, J., Collis, P., and Grosveld, F., Nucleic Acids Res., 1990, vol. 18, pp. 3503–3508.

    PubMed  Google Scholar 

  35. Hug, B.A., Moon, A.M., and Ley, T.J., Nucleic Acids Res., 1992, vol. 20, pp. 5771–5778.

    PubMed  Google Scholar 

  36. Pruzina, S., Hanscombe, O., Whyatt, D., et al., Nucleic Acids Res., 1991, vol. 19, pp. 1413–1419.

    PubMed  Google Scholar 

  37. Bennani-Baiti, I.M., Asa, S.L., Song, D., et al., Proc. Natl. Acad. Sci. USA, 1998, vol. 95, pp. 10655–10660.

    Article  PubMed  Google Scholar 

  38. Workman, J.L. and Kingston, R.E., Annu. Rev. Biochem., 1998, vol. 67, pp. 545–579.

    PubMed  Google Scholar 

  39. Kornberg, R.D. and Lorch, Y., Curr. Opin. Genet. Dev., 1999, vol. 9, pp. 148–151.

    Article  PubMed  Google Scholar 

  40. Armstrong, J.A. and Emerson, B.M., Mol. Cell. Biol., 1996, vol. 16, pp. 5634–5644.

    PubMed  Google Scholar 

  41. Bishop, T.C. and Schulten, K., Proteins, 1996, vol. 24, pp. 115–133.

    PubMed  Google Scholar 

  42. Steger, D.J. and Workman, J.L., BioEssays, 1996, vol. 18, pp. 875–884.

    PubMed  Google Scholar 

  43. Adams, C.C. and Workman, J.L., Cell, 1993, vol. 72, pp. 305–308.

    Article  PubMed  Google Scholar 

  44. Wolffe, A.P., Trends Biochem. Sci., 1994, vol. 19, pp. 240–244.

    Article  PubMed  Google Scholar 

  45. Levitsky, V.G. and Podkolodnaya, O.A., Proc. II Int. Conf. Bioinformatics Genome Regulation Structure, BGRS'2000, Novosibirsk, 2000, vol. 1, pp. 94–97.

    Google Scholar 

  46. Zhuma, T., Tyrrell, R., Sekkali, B., et al., EMBO J., 1999, vol. 18, pp. 6396–6406.

    Article  PubMed  Google Scholar 

  47. Bustin, M., Mol. Cell. Biol., 1999, vol. 19, pp. 5237–5246.

    PubMed  Google Scholar 

  48. Ferre-D'Amare, A.R., Pognonec, P., Roeder, R.G., and Burley, S.K., EMBO J., 1994, vol. 13, pp. 180–189.

    PubMed  Google Scholar 

  49. Igarashi, K., Hoshino, H., Muto, A., et al., J. Biol. Chem., 1998, vol. 273, pp. 11783–11790.

    Article  PubMed  Google Scholar 

  50. Armstrong, J.A., Bieker, J.J., and Emerson, B.M., Cell, 1998, vol. 95, pp. 93–104.

    Article  PubMed  Google Scholar 

  51. McMorrow, T., van den Wijngaard, A., Wollenschlaeger, A., et al., EMBO J., 2000, vol. 19, pp. 4986–4996.

    Article  PubMed  Google Scholar 

  52. Arnold, R., Burcin, M., Kaiser, B., et al., Nucleic Acids Res., 1996, vol. 24, pp. 26400–26407.

    Article  Google Scholar 

  53. Bell, A.C., West, A.G., and Felsenfeld, G., Cell, 1999, vol. 98, pp. 387–396.

    Article  PubMed  Google Scholar 

  54. Georgiev, P.G., Murav'eva, E.E., Golovin, A.K., et al., Genetika, 2000, vol. 36, pp. 1588–1597.

    PubMed  Google Scholar 

  55. Belmont, A.S., Dietzel, S., Nye, A.C., et al., Curr. Opin. Cell. Biol., 1999, vol. 11, pp. 307–311.

    Article  PubMed  Google Scholar 

  56. Bulger, M. and Groudine, M., Genes Dev., 1999, vol. 13, pp. 2465–2477.

    Article  PubMed  Google Scholar 

  57. Kioussis, D. and Festenstein, R., Curr. Opin. Genet. Dev., 1997, vol. 7, pp. 614–619.

    Article  PubMed  Google Scholar 

  58. Higgs, D.R., Cell, 1998, vol. 95, pp. 299–302.

    Article  PubMed  Google Scholar 

  59. Engel, J.D. and Tanimoto, K., Cell, 2000, vol. 100, pp. 499–502.

    Article  PubMed  Google Scholar 

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Podkolodnaya, O.A., Levitsky, V.G. & Podkolodnyi, N.L. Locus Control Regions: Description in the LCR-TRRDatabase. Molecular Biology 35, 802–809 (2001). https://doi.org/10.1023/A:1013221915217

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