Re: fluorophore spectral overlap database for FRET

Posted by George McNamara on
URL: http://confocal-microscopy-list.275.s1.nabble.com/colocalization-analysis-tp786850p1088990.html

Search the CONFOCAL archive at http://listserv.acsu.buffalo.edu/cgi-bin/wa?S1=confocal Hi John and Jean-Pierre,

Janos Szollosi and Horvath Gabor sent me an Excel FRET calculator, that I have modified slightly:

http://home.earthlink.net/~fluorescentdyes/McNamara 20050709 FRET Janos Szollosi Horvath Gabor FRET calculator .xls   


Source spectra data can be found in the Excel files in the PubSpectra dyes/fluorescent proteins zip file
McNamara_Boswell_000_2006_Index _Dyes_FPs_Filters_Lamps_Other_Spectra.xls  
(someone from a company volunteered their staff to consolidate to one file. I haven't heard back from them in a while, so on some rainy - but not too rainy, this being Miami - Sunday, I may merge all of PubSpectra into a single Excel 2007 "big grid" file. I'm also a bit behind in adding spectra from the literature. If anyone has new spectra, please send me the data).


PhotoChemCAD also has a FRET calculator,
http://www.photochemcad.com/

All these links are available at http://home.earthlink.net/~pubspectra/

Enjoy,


George

At 05:48 PM 9/5/2008, you wrote:

Search the CONFOCAL archive at
http://listserv.acsu.buffalo.edu/cgi-bin/wa?S1=confocal

Hi,

I'm using http://omlc.ogi.edu/spectra/PhotochemCAD/html/du98.html

It is not a database but It's a good software to calculate spectral overlap etc. It takes text files so you can add the dyes you are in interested in.

Hope it will help,

JP


John Oreopoulos wrote:

Search the CONFOCAL archive at http://listserv.acsu.buffalo.edu/cgi-bin/wa?S1=confocal Hi listserver,

I would like to know if there's an online database out there that catalogs the spectral overlap (the J integral) between different fluorophores for FRET imaging. I'm thinking of something similar to the Molecular Probes Java Spectral Viewer that allows you to call up the absorption and emission profile of most of their probes and then you can also superimpose on the graph various laser lines, color filters, etc. It would be great to have something similar that would calculate the J integral for any two FRET pairs.

Thanks.

John Oreopoulos, BSc,

PhD Candidate

University of Toronto

Institute For Biomaterials and Biomedical Engineering

Centre For Studies in Molecular Imaging


Tel: W:416-946-5022

 

George McNamara, Ph.D.
University of Miami, Miller School of Medicine
Image Core
Miami, FL 33010
[hidden email]
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305-243-8436 office
http://home.earthlink.net/~pubspectra/
http://home.earthlink.net/~geomcnamara/
http://www.sylvester.org/research/SR_lab_analytical.asp?ana=desc (Analytical Imaging Core Facility)