1 |
Cooper, J.P. and Hagerman, P.J. (1990). Analysis of fluorescence energy transfer in duplex and branched DNAmolecules. Biochem. 29, 9261-9268
DOI
ScienceOn
|
2 |
Cox, W.G., Beaudet, M.P., Agnew, J.Y., and Ruth, J.L. (2004). Possible sources of dye-related signal correlation bias in two-color DNA microarray assays. Anal. Biochem. 331, 243-254
DOI
ScienceOn
|
3 |
Dobbin, K.K., Kawasaki, E.S., Petersen, D.W., and Simon, R.M. (2005). Characterizing dye bias in microarray experiments. Bioinformatics 21,2430-2437
DOI
ScienceOn
|
4 |
Tseng, G.C. et al. (2001). Issues in cDNA microarray analysis: quality filtering, channel normalization, models of variations, and assessment of gene effects. Nucleic Acids Res. 29, 2549-2557
DOI
ScienceOn
|
5 |
Uchida, S. et al. (2005). Detection and normalization of biases present in spotted cDNA microarray data: a composite method addressing dye, intensity-dependent, spatiallydependent, and print-order biases. DNA Res. 12, 1-7
DOI
|
6 |
Herz, A.H. (1974). Dye-dye interactions ofcyanines in solution and at AgBr surfaces. Photogr. Sci. Eng. 18, 323-335
|
7 |
Marras, S.A.E. et al. (2002). Efficiencies of fluorescence resonance energy transfer and contact-mediated quenching in oligonucleotide probes. Nucleic Acids Res. 30, e122
DOI
ScienceOn
|
8 |
Steenken, S. and Jovanovic, S.V. (1997). How easily oxidizable is DNA? One-electron reduction potentials of adenosine and guanosine radicals in aqueous solutions. J. Am. Chem. Soc. 119, 617-618
DOI
ScienceOn
|
9 |
Martin-Magniette, M.L. et al. (2005). Evaluation ofthe genespecific dye bias in cDNA microarray experiments. Bioinformatics 21, 1995-2000
DOI
ScienceOn
|
10 |
Heinlein, T. et al. (2003). Photoinduced electron transfer between fluorescent dyes and guanosine residues in DNA-hairpins. J. Phys. Chem. 107,7957-7964
DOI
ScienceOn
|
11 |
Fukui, K. et al. (1999). Distance dependence of electron transfer in acridine-intercalated DNA. J. Photochem. Photobiol. B: BioI. 50, 18-27
DOI
ScienceOn
|
12 |
Walter, N.G. and Burke, J.M. (1997). Real-time monitoring of hairpin ribozyme kinetics through base-specific quenching of fluorescein-labeled substrates. RNA 3, 392-404
|
13 |
Seidel, C.A.M. et al. (1996). Nucleobase-specific quenching of fluorescent dyes. 1. Nucleobase one-electron redox potentials and their correlation with static and dynamic quenching efficiencies., J. Phys. Chem. 100, 5541-5553
DOI
ScienceOn
|
14 |
Randolph, J.B. and Waggoner, A.S. (1997). Stability, specificity and fluorescence brightness of mUltiply-labeled fluorescent DNA probes. Nucleic Acids Research. 25, 2923-2929
DOI
ScienceOn
|
15 |
Spiess, A.N. et al. (2003). Amplified RNA degradation in T7-amplification methods results in biased microarray hybridizations. BMC Genomics 4, 44
DOI
ScienceOn
|
16 |
Dombkowski, A.A, Thibodeau, B.J., Starcevic, S.L., and Novak, R.F. (2004). Gene-specific dye bias in microarray reference designs. Federation ofEuropean Biochemical Societies Letters 560, 120-124
DOI
ScienceOn
|
17 |
Atherton, S.J. and Harriman, A (1993). Photochemistry of intercalated methylene blue: Photoinduced hydrogen atom abstraction from guanine and adenine. J. Am. Chem. Soc. 115, 1816-1822
DOI
ScienceOn
|
18 |
Han, J., Lee, H., Nguyen, N.Y., Beaucage, S.L., and Puri, R.K. (2005). Novel multiple 5'-amino-modified primer for DNA microarrays. Genomics 86, 252-258
DOI
ScienceOn
|
19 |
Rosenzweig, B.A. et al. (2004). Dye-bias correction in duallabeled cDNA microarray gene expression measurements. Environmental Health Perspectives 112, 480-487
DOI
ScienceOn
|
20 |
Yang, Y.H. et al. (2002). Normalization for cDNA microarray data: a robust composite method addressing single and multiple slide systematic variation Nucleic Acids Res. 30, e15
DOI
ScienceOn
|