The Parallel and Antiparallel Triplex Formation and Stability of Self Complementary Oligonucleotides Containing 2′-Fluoro-arabinosyl Thymine and 5-Methyl-2′-Deoxycytidine

REFERENCES

• Rosenberg , I. , Farras Soler , J. , Tocik , Z. , Ren , W-Y. , Ciszewski , L. A. , Kois , P. , Pankiewicz , K. W. , Spassova , M. K. and Watanabe , K. A. 1993 . Nucleosides Nucleotides , 12 : 381
   Web of Science ®Google Scholar
• Kois , P. , Tocik , Z. , Ren , W-Y. , Spassova , M. K. , Rosenberg , I. , Farras Soler , J. and Watanabe , K. A. 1993 . Nucleosides Nucleotides , 12 : 1093
   Web of Science ®Google Scholar
• Kois , P. and Watanabe , K. A. 1993 . Coll. Czech. Chem. Commun. , 58 : 167 Special Issue
   Google Scholar
• Kois , P. and Watanabe , K. A. 1993 . Nucleic Acid Res. Symp Ser. , 29 : 215
   Google Scholar
• Ren , W-Y. and Watanabe , K. A. 1994 . 207Th ACS National Meeting . March 13–17 1994 , San Diego . Abstr. # CARB 0068
   Google Scholar
• Felsenfeld , G. , Davies , D. R. and Rich , A. 1957 . J. Am. Chem. Soc. , 79 : 2023
   Web of Science ®Google Scholar
• Michelson , A. M. , Massoulie , J. and Guschlbauer , W. 1967 . Prog. Nucleic Acid Res. Mol. Biol. , 6 : 83
   PubMedGoogle Scholar
• Broitman , S. L. , Im , D. D. and Fresco , J. R. 1987 . Proc. Nat. Acad. Sci. USA , 84 : 5120
   PubMed Web of Science ®Google Scholar
• Letai , A. G. , Palladino , M. A. , Fromm , E. , Rizzo , V. and Fresco , J. R. 1988 . Biochemistry , 27 : 9108
   PubMed Web of Science ®Google Scholar
• Arnott , S. A. , Bond , P. J. , Selsing , E. and Smith , P. J. C. 1976 . Nucleic Acid Res. , 3 : 2459
   PubMed Web of Science ®Google Scholar
• Moser , H. E. and Cervan , P. B. 1987 . Science , 238 : 645
   PubMed Web of Science ®Google Scholar
• Cooney , M. , Czernuszewicz , G. , Postel , E. H. , Flint , S. J. and Hogan , M. E. 1991 . Science , 241 : 456
   Web of Science ®Google Scholar
• Beal , P. A. and Dervan , P. B. 1991 . Science , 251 : 1360
   PubMed Web of Science ®Google Scholar
• Pilch , D. S. , Levenson , C. and Shafer , R. H. 1991 . Biochemistry , 30 : 6081
   PubMed Web of Science ®Google Scholar
• Durland , R. H. , Kessler , D. J. , Gunnell , S. , Duvic , M. , Pettitt , B. M. and Hogan , M. E. 1991 . Biochemistry , 30 : 9246
   PubMed Web of Science ®Google Scholar
• Watanabe , K. A. , Reichman , U. , Hirota , K. , Lopez , C. and Fox , J. J. 1979 . J. Med. Chem. , 22 : 21
   PubMed Web of Science ®Google Scholar
• Trousdale , M. D. , Nesburn , A. B. , Su , T. L. , Watanabe , K. A. , Fox , J. J. and Philips , F. S. 1983 . Cancer Res. , 23 : 808
   Google Scholar
• Fourel , I. , Hantz , O. , Watanabe , Jacquet , K. A.C. , Chomel , B. , Fox , J. J. and Trepo , C. 1990 . Antimicrob. Agents Chemother. , 34 : 473
   PubMed Web of Science ®Google Scholar
• Burchenal , J. H. , Chou , T. C. , Lokys , L. , Smith , R. S. , Watanabe , K. A. , Su , T. L. and Fox , J. J. 1982 . Cancer Res. , 42 : 2598
   PubMed Web of Science ®Google Scholar
• Chou , T-C , Burchenal , J. H. , Schmid , F. A. , Braun , T. J. , Su , T. L. , Watanabe , K. A. , Fox , J. J. and Philips , F. S. 1982 . Cancer Res. , 42 : 3957
   PubMed Web of Science ®Google Scholar
• Howard , F. B. , Frazier , J. , Lipsett , M. N. and Miles , H. T. 1964 . Biochem. Biophys. Res. Commun. , 17 : 93
   Web of Science ®Google Scholar
• Dervan , P. B. 1986 . Science , 232 : 464
   PubMed Web of Science ®Google Scholar
• Sklenar , V. and Feigon , J. 1990 . Nature , 345 : 936
   Web of Science ®Google Scholar
• Matteucci , M. D. and Caruthers , M. H. 1981 . J. Am. Chem. Soc. , 103 : 3185
   Web of Science ®Google Scholar
• Beaucage , S. L. and Caruthers , M. H. 1981 . Tetrahedron Lett. , 22 : 1859
   Web of Science ®Google Scholar
• McBride , Caruthers , L. J. and M. H. 1983 . Tetrahedron Lett. , 24 : 245
   Web of Science ®Google Scholar
• Fox , J. J. , Van Praag , D. , Wempen , I. , Doerr , I. L. , Cheong , L. , Knoll , J. E. , Eidinoff , M. L. , Bendich , A. and Brown , G. B. 1959 . J. Am. Chem. Soc. , 81 : 178
   Web of Science ®Google Scholar
• The collected data were transferred to a PC computervia a RS232 port. The ACSII file was saved as DOS format for later studies. The spreadsheet program we used for this analysis was Quattro Pro 5.0 for the Windows version. The data were imported into a spreadsheet as a comma and delimited file. This process is essential at this time otherwise the program will label the data as a character and not numeric any more. Most transferred utilities only recorded the dependent variables, although it was necessary to use the BlocklFill tool of spreadsheet program to build the temperature step column for operation and the BlocklSort tool to rearrange the temperature reading and absorbance in the same order. The regular temperature vs. absorbance curves can be plotted directly. It was easier to adjust the baseline and overlay the different spectra in one chart for better representation than to read the direct print out from the spectrophotometer. In order to solve the spreadsheet calculations and to analyze for our data sets, we developed our own programs in terms of macros to overcome data calculation problems
   Google Scholar
• The macro h is a simple program to process two tasks: A, to sum five data points and divide by five to give the average value and B, to automatically move down five cells to start a new loop. We also inserted an if statement to stop at the end of the column. h is very useful macro to give avg each 5 data points on the right side of calculated column {left}{if @cellpointer(“type”)“v”} {quit} {right} {putcell “@sum(C(-l)R(0)., C(-l)R(5))/6”} {BlockValues C(0)R(0), C(0)R(0)} {down 5} {Branchh}
   Google Scholar
• This changed the 0.1 step temperature measure to 0.5 step. Each time the macro b moved down one cell and tested the remainder of cell value, which multiplied by ten and divided by integer five. If it did not equal to zero, then it deleted the cell and the neighboring cells in the same row. b will delete limit rows in the column if it is empty. {Left} {if @cellpointer(“type”)“v” {BlockDelete. Rows c(2)r(0)., c(0)r(0), partial} {up} {down} {branch b}31. The macro a was the major operator for calculation. a will serve as the major tool for the 1st derivative. {Regression. Independent C(-3)R(0)., C(-2)R(5)} {Regression. Dependent C(-2)R(0)., C(-2)R(5)} {Regression. Output C(0)R(0)} {Regression. Y_intercept compute} {Regression. Go} {left 2} {down} {putcell“+$c(4)$r(6)*c(-l)r(0)+$c(5)$r(0)”} {right 2} {up} {BlockCopy C(2)R(7), C(-l)R(0)} {down} {left 2} {if @cellpointer(“type”)“v”} {quit} {right 2} {branch a}
   Google Scholar
• The macro \a was the major operator for calculation. \a will serve as the major tool for the 1st derivative. {Regression.Independent C(−3)R(O).C(−2)R(5)} {IRegression.Dependent C(−2)R(O).C(−2)R(5)} {Regression.Output C(O)R(O)} (Regression.Y-intercept compute} (Regression.Go} {left 2} {down} {putcell“+$c(4)$r(6)*c(−l)r(0)+$c(5)$r(O)”} {right 2) {up} {down} {left 2} {if @cellpointer(“type”)<>“v”} {quit} {right 2} {branch \a}
   Google Scholar
• Blackburn , G. M. and Gait , M. J. 1990 . Nucleic Acids in Chemistry and Biology , 58 Oxford University Press .
   Google Scholar
• Raghunathan , G. , Miles , H. T. and Sasisekharan , V. 1993 . Biochemistry , 32 : 455
   PubMed Web of Science ®Google Scholar