Talk:Cyanine

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Quartenized nitrogen[edit]

There is a statement about both nitrogens being quartenized. This is not true. Comments please? --Kupirijo (talk) 11:51, 26 December 2007 (UTC)[reply]

I also checked the article cited and there is a mention of quartenized bases. I think there is a mistake in the article. --Kupirijo (talk) 22:44, 26 December 2007 (UTC)[reply]

You are correct. Only one of the nitrogen atoms is quaternary. See the Glen Research web site I listed below for an example structure. —Preceding unsigned comment added by 139.52.202.6 (talk) 18:46, 1 April 2010 (UTC)[reply]

Use in CD-Rs[edit]

Cyanine dyes are still used in the more expensive CD-Rs. Even in my own experience, discs using Cyanine dye (Taiyo Yuden's, Maxell CD-R Pro, etc.) have much better burns and hold up much better than those using pthalocyanine (the other dye used in CD-Rs). All the more expensive media use Cyanine. I emailed Maxell and they informed me that the CD-R Pro uses Cyanine and all their other CD-Rs use pthalocyanine. According to Maxell, their CD-R Pro are designed for 100 years archival [1]. Chris01720 (talk) 15:02, 28 January 2008 (UTC)[reply]

Quantum Yield[edit]

I think the quantum yield of Cy3 is closer to 0.04. Anyone know where the 0.15 number came from? [2] KristinLee (talk) 20:08, 2 June 2008 (UTC)[reply]

Far Red and Red[edit]

The emission peaks of Cy 3 and Cy 5 are 570 and 670. According to the article 570 is red but is actually in the yellow portion of the spectrum. Also, while 670 is red it is generally not regarded as far red. Is there something that I'm missing? Also, does anyone have the emission or excitation spectra that could be posted? User:anonymous —Preceding unsigned comment added by 12.206.129.206 (talk) 03:20, 22 August 2008 (UTC)[reply]

Cy3 and Cy5 colors backwards[edit]

I use Cy3 dyes in the lab, and they are red, not green. In addition, DNA can be synthesized (on a synthesizer) directly with Cy3-phoshoramidites without going through the NHS-ester route. See glenresearch.com under the products/labels links —Preceding unsigned comment added by 139.52.202.6 (talk) 18:34, 1 April 2010 (UTC)[reply]

Glen site for Cy3 phophoramidite = http://www.glenresearch.com/ProductFiles/10-5913.html —Preceding unsigned comment added by 139.52.202.6 (talk) 18:43, 1 April 2010 (UTC)[reply]

Actually, cy3 appears red to the naked eye, but fluoresces green when excited by a laser. Narkissos (talk) 03:48, 2 April 2010 (UTC)[reply]

Sorry broham, Cy3 definitely fluoresces red. See here for instance: http://www.nature.com/nature/journal/v418/n6893/fig_tab/nature00870_F3.html — Preceding unsigned comment added by 141.214.17.4 (talk) 17:38, 31 October 2011 (UTC)[reply]

There is still some inconsistency. The text says "Cy3 dyes fluoresce orange", while the table below displays a color for the emision of Cy3 as green-yellow. AngelHerraez (talk) 09:39, 24 October 2014 (UTC)[reply]

Cy3/5 chemical structure incomplete[edit]

The rather beautiful picture of the chemical structures of cy3 and cy5 dyes appears to be missing the methyl groups on carbon 3 of the indole ring. These are shown in most other structures of the dyes in the literature, including this reference:

H Yu, J Chao, D Patek, R Mujumdar, S Mujumdar, and A S Waggoner Cyanine dye dUTP analogs for enzymatic labeling of DNA probes. Nucleic Acids Res. 1994 August 11; 22(15): 3226–3232. PMC 310300

Narkissos (talk) 03:47, 2 April 2010 (UTC)[reply]

Agreed, the structures for Cy3 and Cy5 are wrong - PJ Jewess — Preceding unsigned comment added by 93.191.24.30 (talk) 16:11, 10 November 2015 (UTC)[reply]

External links modified[edit]

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