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Anal Chem Insights. 2011;6:29-36. doi: 10.4137/ACI.S6568. Epub 2011 Mar 23.

The effect of varying short-chain alkyl substitution on the molar absorptivity and quantum yield of cyanine dyes.

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Department of Chemistry, Georgia State University, P.O. Box 4098, Atlanta, Georgia 30302-4098, USA.


The effect of varying short-chain alkyl substitution of the indole nitrogens on the spectroscopic properties of cyanine dyes was examined. Molar absorptivities and fluorescence quantum yields were determined for a set of pentamethine dyes and a set of heptamethine dyes for which the substitution of the indole nitrogen was varied. For both sets of dyes, increasing alkyl chain length resulted in no significant change in quantum yield or molar absorptivity. These results may be useful in designing new cyanine dyes for analytical applications and predicting their spectroscopic properties.


cyanine dyes; molar absorptivity; quantum yield; spectroscopy; substitution effects

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