Paul,
Thanks for your candid review of the Data Explorer software. This is exactly
the sort of information that makes the ABRF discussion group so valuable. I
had been considering upgrading from Grams 386 but I am not so sure now. Too
bad there isn't decent software for such expensive hardware. Perhaps some of
the other mass spec vendors have software that could handle this?
----------------------------------------------------------------------
Gordon Alton, Ph.D.
Analytical/Protein Chemistry and Mass Spectrometry
Signal Pharmaceuticals, Inc.
5555 Oberlin Drive
San Diego, CA 92121
Email: galton@signalpharm.com <mailto:galton@signalpharm.com>
Phone: 858-558-7500 x8252
Fax: 858-623-0870
WWW: http://www.electriciti.com/signal <http://www.electriciti.com/signal>
----------------------------------------------------------------------
-----Original Message-----
From: Paul Morrison [SMTP:paul_morrison@dfci.harvard.edu]
Sent: Wednesday, January 12, 2000 11:26 AM
To: Recipients of ABRF List
Subject: Mass Spec: DE-STR, new software
Dear Mass speckers,
My lab has been beta testing the new software on the Voyager DE-STR
and it looks like it's being sold now so I can talk about it. It has a lot
of nice features that I don't want to talk about because I need a solution
to a feature that they omitted.
Omission: You cannot overlay two spectrum files. And because of the
way they wrote the software I don't think it is going to be something that
they are going to be adding anytime soon. Unbelievable.
Example of why we want to overlay: We have a project we're working
on that involves a bunch of GST fusion proteins. Ultimately we want to
track, after an assay is run, which amino acids become phosphorylated.
No brainer, right.
Tryptic digest everything.
Shoot the GST no fusion.
Shoot the GST fusion.
Shoot the GST fusion putative phosphorylation.
Do a Protein Prospector MS-Fit on the GST fusion to make sure
everything is as expected. Then the fun part: overlay the GST no fusion onto
the GST fusion and isolate the unique peaks. These unique peaks now become
your working template to compare to the phosphrylated sample. Overlay on the
putative. Look for changes. End of story, go home and play with the kids.
But I can't overlay. Last PE answer: export chromatogram to
Powerpoint. You have _got_ to be kidding me. Make sure that every parameter
is exactly identical and then stick it in a graphics program?
So the question: What is the easiest way to do this? Are there other
programs that the Data Explorer spectrum files can be exported to so one can
overlay multiple files. Do we have to export them into Grams? I thought we
had seen the last of that piece of crap but at least it could overlay.
Any simple suggestions?
thanks, Paul
____________________________________
Paul Morrison JFB216 paul_morrison@dfci.harvard.edu
Molecular Biology Core Facilities
Dana-Farber Cancer Institute http://mbcf.dfci.harvard.edu
44 Binney Street 617-632-3082
Boston, MA 02115 fax 632-4814
____________________________________
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