Review of denaturant capillary electrophoresis in DNA variation analysis

Electrophoresis

Volumn 26, Issue 13, 2005, Pages 2520-2530

  Bjørheim, Jens ^a,b   Ekstrøm, Per Olaf ^b  

^a UNIVERSITY OF OSLO   (Norway)

^b OSLO UNIVERSITY HOSPITAL   (Norway)

Author keywords

Denaturant capillary electrophoresis; DNA variation; Pooling; Review; Single nucleotide polymorphism

Indexed keywords

CLINICAL RESEARCH; DNA; DNA SEQUENCES; GENE ENCODING; NUCLEOTIDES; POLYMORPHISM;

CLINICAL PRACTICES; DENATURANT CAPILLARY ELECTROPHORESIS; DNA VARIATIONS; GENETIC RESEARCH; GERMLINE; POOLING; POPULATION GENETICS; SINGLE NUCLEOTIDE POLYMORPHISMS; SINGLE NUCLEOTIDES; VARIATION ANALYSIS;

CAPILLARY ELECTROPHORESIS;

DNA;

ALLELIC IMBALANCE; ANALYTIC METHOD; AUTOMATION; CAPILLARY ELECTROPHORESIS; CLINICAL PRACTICE; CONTROLLED STUDY; DNA DETERMINATION; DNA SEQUENCE; GERM LINE; HAPLOTYPE; HUMAN; MUTATIONAL ANALYSIS; POPULATION GENETICS; RELIABILITY; REVIEW; SENSITIVITY AND SPECIFICITY; SINGLE NUCLEOTIDE POLYMORPHISM;

EID: 22244437593     PISSN: 01730835     EISSN: None     Source Type: Journal    
DOI: 10.1002/elps.200410403     Document Type: Review

References (88)

1. Poland, D., Biopolymers 1974, 13, 1859-1871.
2. Steger, G., Nucleic Acids Res. 1994, 22, 2760-2768.
3. Myers, R. M., Fischer, S. G., Maniatis, T., Lerman, L. S., Nucleic Acids Res. 1985, 13, 3111-3129.
4. Sheffield, V. C., Cox, D. R., Lerman, L. S., Myers, R. M., Proc. Natl. Acad. Sci. USA 1989, 86, 232-236.
5. Bjørheim, J., Lystad, S., Lindblom, A., Kressner, U., Westring, S., Wahlberg, S., Lindmark, G., Gaudernack, G., Ekstrøm, P., Røe, J., Thilly, W. G., Børresen-Dale, A. L., Mutat. Res. 1998, 403, 103-112.
6. Li-Sucholeiki, X. C., Khrapko, K., Andre, P. C., Marcelino, L. A., Karger, B. L., Thilly, W. G., Electrophoresis 1999, 20, 1224-1232.
7. Ekstrom, P. O., Børresen-Dale, A. L., Qvist, H., Giercksky, K. E., Thilly, W. G., BioTechniques 1999, 27, 128-134.
8. Kristensen, A. T., Bjørheim, J., Ekstrøm, P. O., BioTechniques 2002, 33, 650-653.
9. Bjørheim, J., Abrahamsen, T. W., Kristensen, A. T., Gaudernack, G., Ekstrøm, P. O., Mutat. Res. 2003, 526, 75-83.
10. Khrapko, K., Hanekamp, J. S., Thilly, W. G., Belenkii, A., Foret, F., Karger, B. L., Nucleic Acids Res. 1994, 22, 364-369.
11. Sæterdal, I., Bjørheim, J., Lislerud, K., Gjertsen, M. K., Bukholm, I. K., Olsen, O. C., Nesland, J. M., Eriksen, J. A., Møller, M., Lindblom, A., Gaudernack, G., Proc. Natl. Acad. Sci. USA 2001, 98, 13255-13260.
12. Muniappan, B. P., Thilly, W. G., Cancer Res. 2002, 62, 3271-3275.
13. Ekstrøm, P. O., Bjørheim, J., Gaudernack, G., Giercksky, K. E., J. Biomol. Screen 2002, 7, 501-506.
14. Kristensen, A. T., Bjørheim, J., Wiig, J., Giercksky, K. E., Ekstrøm, P. O., Int. J. Colorectal Dis. 2004, 19, 49-54.
15. Minarik, M., Minarikova, L., Bjørheim, J., Ekstrøm, P. O., Electrophoresis 2003, 24, 1716-1722.
16. Bjørheim, J., Gaudernack, G., Ekstrøm, P. O., Tumour Biol. 2001, 22, 323-327.
17. Bjørheim, J., Ekstrøm, P. O., Fossberg, E., Børresen-Dale, A. L., Gaudernack, G., BioTechniques 2001, 30, 972-975.
18. Myers, R. M., Fischer, S. G., Lerman, L. S., Maniatis, T., Nucleic Acids Res. 1985, 13, 3131-3145.
19. Kim, A. S., Thilly, W. G., Nucleic Acids Res. 2003, 31, e97.
20. Kim, A. S., Holmquist, G. P., Thilly, W. G., Anal. Biochem. 2002, 310, 179-185.
21. Gille, C., Gille, A., Booms, P., Robinson, P. N., Nurnberg, P., Electrophoresis 1998, 19, 1347-1350.
22. Costes, B., Girodon, E., Ghanem, N., Chassignol, M., Thuong, N. T., Dupret, D., Goossens, M., Hum. Mol. Genet. 1993, 2, 393-397.
23. Ribba, A. S., Lavergne, J. M., Bahnak, B. R., Derlon, A., Pietu, G., Meyer, D., Blood 1991, 78, 1738-1743.
24. Skeidsvoll, J., Ueland, P. M., Anal. Biochem. 1995, 231, 359-365.
25. Gelfi, C., Righetti, P. G., Cremonesi, L., Ferrari, M., Electrophoresis 1994, 15, 1506-1511.
26. Zhao, C., Xu, G., Shi, X., Ma, J., Lu, S., Yang, Q., Biomed. Chromatogr. 2004, 18, 538-541.
27. Ekstrøm, P. O., Wasserkort, R., Minarik, M., Foret, F., Thilly, W. G., BioTechniques 2000, 29, 582-584, 586-589.
28. Bjørheim, J., Minarik, M., Gaudernack, G., Ekstrøm, P. O., Anal. Biochem. 2002, 304, 200-205.
29. Fischer, S. G., Lerman, L. S., Cell 1979, 16, 191-200.
30. Khrapko, K., Coller, H., Thilly, W., Electrophoresis 1996, 17, 1867-1874.
31. Guldberg, P., Gronbak, K., Aggerholm, A., Platz, A., thor Straten, P., Ahrenkiel, V., Hokland, P., Zeuthen, J., Nucleic Acids Res. 1998, 26, 1548-1549.
32. http://www.iupac.org/reports/1993/6509duffus/s.html, 15.03.2005.
33. Gejman, P. V., Cao, Q., Guedj, F., Sommer, S., Mutat. Res. 1998, 382, 109-114.
34. Trulzsch, B., Krohn, K., Wonerow, P., Paschke, R., BioTechniques 1999, 27, 266-268.
35. Kumar, R., Hanekamp, J. S., Louhelainen, J., Burvall, K., Onfelt, A., Hemminki, K., Thilly, W. G., Carcinogenesis 1995, 16, 2667-2673.
36. Tomita-Mitchell, A., Kat, A. G., Marcelino, L. A., Li-Sucholeiki, X. C., Goodluck-Griffith, J., Thilly, W. G., Mutat. Res. 2000, 450, 125-138.
37. Lim, E. L., Tomita, A. V., Thilly, W. G., Polz, M. F., Appl. Environ. Microbiol. 2001, 67, 3897-3903.
38. Coller, H. A., Khrapko, K., Torres, A., Frampton, M. W., Utell, M. J., Thilly, W. G., Cancer Res. 1998, 58, 1268-1277.
39. Muller, O., Foret, F., Karger, B. L., Anal. Chem. 1995, 67, 2974-2980.
40. Li-Sucholeiki, X. C., Tomita-Mitchell, A., Arnold, K., Glassner, B. J., Thompson, T., Murthy, J. V., Berk, L., Lange, C., Leong-Morgenthaler, P. M., Macdougall, D., Munro, J., Cannon, D., Mistry, T., Miller, A., Deka, C., Karger, B., Gillespie, K. M., Ekstrøm, P. O., Todd, J. A., Thilly, W. G., Mutat. Res. 2005, 570, 267-280.
41. Bjørheim, J., Minarik, M., Gaudernack, G., Ekstrøm, P., J. Sep. Sci. 2003, 26, 1163-1168.
42. Bjørheim, J., Gaudernack, G., Giercksky, K. E., Ekstrøm, P. O., Electrophoresis 2003, 24, 63-69.
43. Guldberg, P., Lou, H. C., Henriksen, K. F., Mikkelsen, I., Olsen, B., Holck, B., Guttler, F., Hum. Mol. Genet. 1993, 2, 1061-1062.
44. Khrapko, K., Coller, H., Andre, P., Li, X. C., Foret, F., Belenky, A., Karger, B. L., Thilly, W. G., Nucleic Acids Res. 1997, 25, 685-693.
45. Khrapko, K., Coller, H. A., Hanekamp, J. S., Thilly, W. G., Nucleic Acids Res. 1998, 26, 5738-5740.
46. http://www.iupac.org/goldbook/L03540.pdf, 15.03.2005.
47. Barnard, R., Futo, V., Pecheniuk, N., Slattery, M., Walsh, T., Biotechniques 1998, 25, 684-691.
48. Keohavong, P., Thilly, W. G., Proc. Natl. Acad. Sci. USA 1989, 86, 9253-9257.
49. Minarik, M., Kleparnik, K., Gilar, M., Foret, F., Miller, A. W., Sosic, Z., Karger, B. L., Electrophoresis 2002, 23, 35-42.
50. Li, X. C., Thilly, W. G., Electrophoresis 1996, 17, 1884-1889.
51. Pharoah, P. D., Dunning, A. M., Ponder, B. A., Easton, D. F., Nat. Rev. Cancer 2004, 4, 850-860.
52. Barratt, B. J., Payne, F., Rance, H. E., Nutland, S., Todd, J. A., Clayton, D. G., Ann. Hum. Genet. 2002, 66, 393-405.
53. Sasaki, T., Tahira, T., Suzuki, A., Higasa, K., Kukita, Y., Baba, S., Hayashi, K., Am. J. Hum. Genet. 2001, 68, 214-218.
54. Xue, M. Z., Bonny, O., Morgenthaler, S., Bochud, M., Mooser, V., Thilly, W. G., Schild, L., Leong-Morgenthaler, P. M., Clin. Chem. 2002, 48, 718-728.
55. Chen, L. C., Neubauer, A., Kurisu, W., Waldman, F. M., Ljung, B. M., Goodson, W., 3rd, Goldman, E. S., Moore, D., 2nd, Balazs, M., Liu, E. et al., Proc. Natl. Acad. Sci. USA 1991, 88, 3847-3851.
56. Skotheim, R. I., Diep, C. B., Kraggerud, S. M., Jakobsen, K. S., Lothe, R. A., Cancer Genet. Cytogenet. 2001, 127, 64-70.
57. http://www.iupac.org/reports/1993/6509duffus/s.html#specificity, 15.03.2005
58. Bjørheim, J., Gaudernack, G., Ekstrøm, P., J. Sep. Sci. 2002, 25, 637-647.
59. http://www.iupac.org/goldbook/R05293.pdf, 15.03.2005.
60. Franca, L. T., Carrilho, E., Kist, T. B., Q. Rev. Biophys. 2002, 35, 169-200.
61. Xiao, W., Oefner, P. J., Hum. Mutat. 2001, 17, 439-474.
62. Andersen, P. S., Jespersgaard, C., Vuust, J., Christiansen, M., Larsen, L. A., Hum. Mutat. 2003, 21, 455-465.
63. Ganguly, A., Hum. Mutat. 2002, 19, 334-342.
64. Nedergaard, T., Guldberg, P., Ralfkiaer, E., Zeuthen, J., Int. J. Cancer 1997, 71, 364-369.
65. Guldberg, P., Nedergaard, T., Nielsen, H. J., Olsen, A. C., Ahrenkiel, V., Zeuthen, J., Hum. Mutat. 1997, 9, 348-355.
66. Guldberg, P., Henriksen, K. F., Guttler, F., Genomics 1993, 17, 141-146.
67. Ferec, C., Audrezet, M. P., Mercier, B., Guillermit, H., Moullier, P., Quere, I., Verlingue, C., Nat. Genet. 1992, 1, 188-191.
68. Andersen, T. I., Eiken, H. G., Couch, F., Kaada, G., Skrede, M., Johnsen, H., Aloysius, T. A., Tveit, K. M., Tranebjaerg, L., Dorum, A., Møller, P., Weber, B. L., Børresen-Dale, A. L., Hum. Mutat. 1998, 11, 166-174.
69. Børresen, A. L., Lothe, R. A., Meling, G. I., Lystad, S., Morrison, P., Lipford, J., Kane, M. F., Rognum, T. O., Kolodner, R. D., Hum. Mol. Genet. 1995, 4, 2065-2072.
70. Hovig, E., Smith-Sørensen, B., Gebhardt, M. C., Ryberg, D., Lothe, R., Børresen, A. L., Genes Chromosomes Cancer 1992, 5, 97-103.
71. Ridanpaa, M., Burvall, K., Zhang, L. H., Husgafvel-Pursiainen, K., Onfelt, A., Mutat. Res. 1995, 334, 357-364.
72. Smith-Sørensen, B., Hovig, E., Andersson, B., Børresen, A. L., Mutat. Res. 1992, 269, 41-53.
73. Yoshino, K., Nishigaki, K., Husimi, Y., Nucleic Acids Res. 1991, 19, 3153.
74. Wong, L. J., Liang, M. H., Kwon, H., Park, J., Bai, R. K., Tan, D. J., Clin. Chem. 2002, 48, 1901-1912.
75. Wong, L. J., Liang, M. H., Kwon, H., Bai, R. K., Alper, O., Gropman, A., Am. J. Med. Genet. 2002, 113, 59-64.
76. Adamcik, J., Viglasky, V., Valle, F., Antalik, M., Podhradsky, D., Dietler, G., Electrophoresis 2002, 23, 3300-3309.
77. Hernan-Gomez, S., Espinosa, J. C., Ubeda, J. F., FEMS Microbiol. Lett. 2000, 193, 45-50.
78. Underhill, P. A., Jin, L., Lin, A. A., Mehdi, S. Q., Jenkins, T., Vollrath, D., Davis, R. W., Cavalli-Sforza, L. L., Oefner, P. J., Genome Res. 1997, 7, 996-1005.
79. Underhill, P. A., Jin, L., Zemans, R., Oefner, P. J., Cavalli-Sforza, L. L., Proc. Natl. Acad. Sci. USA 1996, 93, 196-200.
80. Gross, E., Kiechle, M., Arnold, N., J. Biochem. Biophys. Methods 2001, 47, 73-81.
81. Wagner, T., Stoppa-Lyonnet, D., Fleischmann, E., Muhr, D., Pages, S., Sandberg, T., Caux, V., Moeslinger, R., Langbauer, G., Borg, A., Oefner, P., Genomics 1999, 62, 369-376.
82. Lilleberg, S. L., Durocher, J., Sanders, C., Walters, K., Culver, K., Ann. NY Acad. Sci. 2004, 1022, 250-256.
83. Tian, H., Emrich, C. A., Scherer, J. R., Mathies, R. A., Andersen, P. S., Larsen, L. A., Christiansen, M., Electrophoresis 2005, 26, 1834-1842.
84. Nataraj, A. J., Olivos-Glander, I., Kusukawa, N., Highsmith, W. E., Jr., Electrophoresis 1999, 20, 1177-1185.
85. Ellis, L. A., Taylor, C. F., Taylor, G. R., Hum. Mutat. 2000, 15, 556-564.
86. Kringen, P., Egedal, S., Pedersen, J. C., Harbitz, T. B., Tveit, K. M., Berg, K., Borresen-Dale, A. L., Andersen, T. I., Electrophoresis 2002, 23, 4085-4091.
87. Kukita, Y., Higasa, K., Baba, S., Nakamura, M., Manago, S., Suzuki, A., Tahiray, T., Hayashi, K., Electrophoresis 2002, 23, 2259-2266.
88. Kuypers, A. W., Willems, P. M., van der Schans, M. J., Linssen, P. C., Wessels, H. M., de Bruijn, C. H., Everaerts, F. M., Mensink, E. J., J. Chromatogr. 1993, 621, 149-156.