Search the CONFOCAL archive at
http://listserv.acsu.buffalo.edu/cgi-bin/wa?S1=confocal
Hi Stephen,
We have comprehensive filter datasets from Chroma and Omega (hundreds).
Once we have the ability to include notes on filters, mirrors, etc (a case
in point regarding the need for help with MS Access) as we have for
fluorochromes, you should be able to get pretty close to finding a filter
combination that works. We also plan to have the ability to chose filter
sets, so that ready made sets can be evaluated.
If you want to evaluate an individual component, chose the "Dummy" spectrum
(value of "1" across the entire spectrum) for all other catagories. That
way the only influence on the calculated output is from the dye and the
single component.
Carl
Carl A. Boswell, Ph.D.
Molecular and Cellular Biology
University of Arizona
520-626-8469
FAX 520-621-3709
----- Original Message -----
From: "Stephen Cody" <[log in to unmask]>
To: <[log in to unmask]>
Sent: Thursday, May 05, 2005 5:28 PM
Subject: Re: Online fluorescence protein resource
Search the CONFOCAL archive at
http://listserv.acsu.buffalo.edu/cgi-bin/wa?S1=confocal
Dear Carl, George, James and Amit,
Congratulations on a fantastic resource. And THANK YOU.
May I make a suggestion? No doubt having the spectra of available
filters in the data base is important. But I've often thought it would
be useful to be able to put in a fictitious filter as well. For instance
I may be thinking of getting a special dichroic made up. If there was a
table where you could input data such as filter type (LP, SP, BP, notch)
and wavelength characteristics (eg. 532/10 or 515 LP) your resource
could then plot an idealised spectra of this filter.
The old Bio-Rad Fluorescence Data Base http://fluorescence.bio-rad.com/
suffers from being limited to filters that Bio-Rad stocked, and even
then there were limitations. Often I was forced to pick the closest
filter, but keying in an idealised or fictitious filter would cover all
bases. No doubt inclusion of the existing commercial filter spectra is
going to be very useful in the data base as well.
I'm putting a link on my web page straight away.
Or as they would say, as the ultimate compliment in the Australian movie
The Castle, "That's going straight to the pool room."
Thanks again,
Stephen H. Cody
Microscopy Manager
Central Resource for Advanced Microscopy
Ludwig Institute For Cancer Research
PO Box 2008 Royal Melbourne Hospital
Parkville Victoria 3050
Australia
Tel: 61 3 9341 3155 Fax: 61 3 9341 3104
email: [log in to unmask]
www.ludwig.edu.au/labs/confocal.html
www.ludwig.edu.au/confocal
-----Original Message-----
From: Confocal Microscopy List [mailto:[log in to unmask]] On
Behalf Of carl
Sent: Friday, 6 May 2005 4:22 AM
To: [log in to unmask]
Subject: Re: Online fluorescence protein resource
Search the CONFOCAL archive at
http://listserv.acsu.buffalo.edu/cgi-bin/wa?S1=confocal
Hi Marco,
In response to your inquiry and comments from others:
As it turns out, George McNamara and myself have been working on just
such a
resource for some time. We currently have about 800 spectra in the
database,
mostly fluorescent molecules, but also some of lamps, filters and
mirrors.
The current url is: http://www.mcb.arizona.edu/ipc/fret/ The site has
some
"logistical" flaws that need to be worked out, but it is currrently
functional. There is a turorial, which is useful to appreciate what the
site has to offer, or you can go directly to the graphing/data page.
Flash
ver. 6.0 (free download from Macromedia.com) is needed to make the site
work, and the current version loads slowly, so be patient.
The first page simply lets you view the spectral curves for the items
in
the database and a Notes page provides additional info. The
calculations
button takes you to another page where you have the ability to derive
some
indicies of fluorescent efficiencies by selecting any combination of
dye,
light source, ex
filter, em filter and dichroic mirror. The indices are defined at
http://www.mcb.arizona.edu/ipc/fret/definitions.htm.
Anyone using the site should feel free to make comments or suggestions
as
you see fit. Our intent
it to keep the site as up-to-date as possible, so spectral data on new
molecules is very welcome. Please contact George ([log in to unmask]) or
myself ([log in to unmask]) to discuss data formatting and
content
issues. Also, if there is anyone with expertise in Flash and/or MS
Access
who would like to be involved in this site, please feel free to get in
touch. We could use some help with database management and additional
interactive features on the site.
Regards,
Carl
Carl A. Boswell, Ph.D.
Molecular and Cellular Biology
University of Arizona
520-626-8469
FAX 520-621-3709
----- Original Message -----
From: "Marco Prado" <[log in to unmask]>
To: <[log in to unmask]>
Sent: Thursday, April 28, 2005 9:44 AM
Subject: Re: Online fluorescence protein resource
> Search the CONFOCAL archive at
> http://listserv.acsu.buffalo.edu/cgi-bin/wa?S1=confocal
>
> I think it would be particularly useful if a database containing
fusion
> proteins with EGFP, EYFP and others is available to the research
> community. People could send information on their lab's constructs
with
> references on published constructs.
>
> Dr. Marco Antonio M. Prado
> Associate Professor
> Department of Pharmacology, ICB
> UFMG, Av. Antonio Carlos 6627 Belo Horizonte, MG
> 31275-120, Brazil
> tel 55 31 34992718
> fax 55 31 34992695
>
>
> -----Original Message-----
> From: Confocal Microscopy List [mailto:[log in to unmask]]
On
> Behalf Of Michael J. Herron
> Sent: Thursday, April 28, 2005 1:24 PM
> To: [log in to unmask]
> Subject: Re: Online fluorescence protein resource
>
> Search the CONFOCAL archive at
> http://listserv.acsu.buffalo.edu/cgi-bin/wa?S1=confocal
>
> please do.
>
>
> On Apr 28, 2005, at 10:25 AM, simon walker (BI) wrote:
>
>> Search the CONFOCAL archive at
>> http://listserv.acsu.buffalo.edu/cgi-bin/wa?S1=confocal
>>
>> Presumably Jeff is after a database specifically for the latest
>> proteins
>> from the likes of R Tsien et al. I too would like to know if there
is
>> an online resource for GFP variants or new fluorescent proteins with
>> details such as excitation/emission profiles, references to their
>> design
>> and use and where you can get hold of them. Some kind of user input
>> would be ideal so that those using these things in the real world can
>> cut though some of the commercial/publication spin.
>>
>> Perhaps I need to start one..
>>
>> Simon
>>
>>
>>
>> -----Original Message-----
>> From: Confocal Microscopy List [mailto:[log in to unmask]]
>> On
>> Behalf Of Debbie Hardie
>> Sent: 28 April 2005 15:53
>> To: [log in to unmask]
>> Subject: Re: online fluorescence protein resource
>>
>>
>> Search the CONFOCAL archive at
>> http://listserv.acsu.buffalo.edu/cgi-bin/wa?S1=confocal
>>
>> try
>> http://www.zeiss.de/C12567BE0045ACF1/Inhalt-Frame/
>> E840CF3ECD8AF76EC1256F
>> A500346448?OpenDocument&Highlight=fluorochrome%20database
>>
>> Debbie Hardie
>> Research Fellow
>> MRC Centre for Immune Regulation
>> Institute of Biomedical Research Floor 4
>> University of Birmingham
>> Birmingham
>> B15 2TT
>>
>> 0121 414 6970
>>
>>
>> -----Original Message-----
>> From: Confocal Microscopy List
> [mailto:[log in to unmask]]On
>> Behalf Of Reece, Jeff (NIH/NIEHS)
>> Sent: 28 April 2005 15:13
>> To: [log in to unmask]
>> Subject: online fluorescence protein resource
>>
>>
>> Search the CONFOCAL archive at
>> http://listserv.acsu.buffalo.edu/cgi-bin/wa?S1=confocal
>>
>> Does anyone know of an online resource that maintains a list of
>> currently available fluorescent proteins?
>>
>> Or, if not, please let the list know what are the current best
> versions
>> of fluorescent proteins (all colors welcome)?
>>
>>
>> Cheers,
>> Jeff M. Reece
>> Biomedical Engineer
>> Confocal Microscopy Center
>> National Institute of Environmental Health Sciences (NIEHS)
>> 111 Alexander Drive, Bldg, 101, Rm. F219
>> P.O. Box 12233, MD F2-02
>> Research Triangle Park, NC 27709
>> (919) 541-0311
>> [log in to unmask]
>>
>>
> ---
>
> Michael J. Herron, U of MN, Dept. of Entomology
> [log in to unmask]
> 612-624-3688 (office) 612-625-5299 (FAX)
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