IFN far red tandem conjugates & a question for Mario
roederer at drmr.com
Thu Apr 29 14:16:07 EST 2004
What, and beg my 6th posting in 2 weeks? I'm sure a collective groan
will be heard around the world.
I guess the main reason for using the terminology Cy5PE as opposed to
PECy5 is simply one of habit--we started with this terminology early.
I can't honestly say if I picked it up from another source or not. I
looked up the original paper (Lansdorp et al), and found that they
use PE/Cy5, so that would seem to settle any originality arguments.
The main reason that I prefer Cy5PE is that it puts the most
important aspect of the fluorochrome out there first. Thus, when you
refer to TRPE, Cy5PE, Cy5.5PE, and Cy7PE, all of which we use
simultaneously in our system, the first thing you see and hear is the
molecule that is emitting, which, after all, is the important part of
the system (and the part that distinguishes these four fluorochromes).
A very minor aspect is that I feel it is more readable, in that the
digit naturally acts as a separator between the two moieties when
written as Cy5PE... and anyone will automatically know how to say
this abbreviation. Someone not in the know, however, when confronted
with PECy5, would never know to pronounce this as "P-E-Cy-5", rather
than "P-E-C-y-5" (which some people use anyway), or "PEC-y-5", or the
potentially interesting "pecky-five".
OK, that's a stupid reason, but I'm really grasping here. Maybe I
just like being different. (Please, no need to confirm that, my
email box will break).
(PS, remember that PharMingen for a while tried their own names for
these--PharRed (Cy7PE) and TruRed (Cy7APC), but it probably became
difficult to keep coming up with new names for Cy5.5PE
("virtuallyRed"), Cy5.5APC ("somewhatRedButNotAsRedAsTrueRed"), not
to mention Cy5PE
Hey, we could have quite a bit of fun helping Quantum Dot, Inc., name
all of their dots: QD585 could be QuantumOrange, QD605 = QuantumRed,
QD655 = QuantumRedder, QD705 = QuantumReddest. QD745 would have to
>Mario: A question I have always wanted to ask you. My instinct is to refer
>to a tandem with the excited dye noted first and the emitting dye noted
>second (e.g. PE/Cy5). I use this order because it is in the order in which
>the light energy interacts with the tandem (first excited, then emitted).
>Mario, you always use the opposite convention (e.g. Cy5/PE) and must have a
>good reason for doing so, what it it?
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