Posted by
Joshi, Manju on
Dec 10, 2007; 9:37pm
URL: http://imagej.273.s1.nabble.com/Baseline-for-Gel-Analysis-tp3697810p3697812.html
I am a new ImageJ user and trying to analyze band intensities in
Coomassie Blue stained gels. I am having same problem (i.e. baseline is
not uniform). It is more of problem if there are 3-4 bands in a lane and
some are dark and others are light. All I am trying to get a relative %
of each band in a lane. Please any tips/advise, I would be greatly
appreciative. Thanks.
Manju
Thanks
-----Original Message-----
From: ImageJ Interest Group [mailto:
[hidden email]] On Behalf Of
ALEX CHAMPAGNE
Sent: Monday, December 10, 2007 9:53 AM
To:
[hidden email]
Subject: Baseline for Gel Analysis
I'm currently using ImageJ to analyze thin layer chromatography plates.
It seems that the gel analyzer option is the best way to analyze the
density values of my bands. However, one thing that I've noticed is
that the baseline is not often constant or straight when I plot the
density profile under the gel analysis menu. Thus, when I use the wand
tool to measure the area under my peak, The tails are often included. I
know that the method used by many people is simply to use the straight
line tool to draw their own baseline, but this method makes me nervous,
as there are several human errors that could be introduced with this
process. Is there a plugin or existing process in ImageJ that could
remove the baseline from the gel profile plots automatically? My lab
group has previously used TN Image to analyze TLC plates, and this
program, despite its age, is able to perform such a function. If anyone
has such a plugin, or knows how I might write a macro to generate a
baselin
e automatically, I would be greatly appreciative.
Thanks,
Alex Champagne
Ohio State University