Re: Cell counting with imageJ

Posted by Antonis Giakountis on
URL: http://imagej.273.s1.nabble.com/Cell-counting-with-imageJ-tp3690375p3690380.html

Hi Esteban,

I really would prefer not to do it by hand. A typical experiment of mine
involves several timepoints (10-16) and at least five reps per line. Each
one of those has hundreds of cells and I was hoping for some stitistics out
of this. To make a long story sort I expect thousants of cells and I would
like to get an estimation of the percentage of them that has fluorescence
out of the total.

In the worst case I could deal with user define-clinking as long as I could
mark the cells that are counted. As for the images I am aiming for
triple-stain nuclear immunofluorescence, but since this is done with the
confocal I can easily scan each channel separately, including the
transmitted-light one (BF).

Antonis
----- Original Message -----
From: "G. Esteban Fernandez" <[hidden email]>
To: <[hidden email]>
Sent: Friday, November 13, 2009 2:10 PM
Subject: Re: Cell counting with imageJ

> How many images/cells do you need to count?  Is this something that
> you can do by hand in a matter of a couple of days or do you want an
> automated procedure?  Often it takes a few days to get an automated
> procedure to work correctly, if it ever works at all, during which
> time you could've done the counting by hand.  There are probably
> ImageJ plugins that keep track of counts as you click on cells in the
> images.
>
> Do you have images that match the fluorescence images to get total
> cell numbers?  For example transmitted light (brightfield/phase/DIC)
> images?
>
> -Esteban
>
>
> On Fri, Nov 13, 2009 at 7:43 AM, Antonis Giakountis <[hidden email]>
> wrote:
>> Dear all,
>>
>> I am a plant Biologist and I would like to use ImageJ in order to count
>> cell numbers (diameter 10-20 microns on average) and to estimate
>> percentage of cells that have fluorescence.
>>
>> Is it possible to to that with ImageJ and if yes do I have to install a
>> certain plugin? If not can you recomment another software?
>>
>> Thank you in advance for your time,
>>
>> Antonis
>>
>> --------------------------------------------
>> Antonis Giakountis, PhD
>> Prof. David Baulcombe group
>> Department of Plant Sciences
>> University of Cambridge
>> Downing Street
>> Cambridge CB2 3EA
>> UK
>>
>
>
>
> --
> G. Esteban Fernandez, Ph.D.
>
> Associate Director
> Molecular Cytology Core Facility
> University of Missouri
> 120 Bond Life Sciences Center
> Columbia, MO  65211
>
> http://www.biotech.missouri.edu/mcc
>
> [phone]
> [phone] fax
>