question on image J

[Anne Chetty]

I am trying to measure immunohistochemistry stains in a lung specimens.
How do i measure the area and or intensity of certain stains using imageJ?

Thanks, Anne

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ImageJ mailing list: http://imagej.nih.gov/ij/list.html

[Ignacio Arganda-Carreras-2]

Hello Anne,

You need to delineate your regions of interest using a selection tool and
then click on Analyze > Measure.

Have a look at the manual entry for the Analyze menu:
http://imagej.net/ij/docs/guide/146-30.html

Cheers!

ignacio

On Mon, Oct 17, 2016 at 7:03 PM, Anne Chetty <[hidden email]> wrote:

> I am trying to measure immunohistochemistry stains in a lung specimens.
> How do i measure the area and or intensity of certain stains using imageJ?
>
> Thanks, Anne
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>



--
Ignacio Arganda-Carreras, Ph.D.
Ikerbasque Research Fellow
Departamento de Ciencia de la Computacion e Inteligencia Artificial
Facultad de Informatica, Universidad del Pais Vasco
Paseo de Manuel Lardizabal, 1
20018 Donostia-San Sebastian
Guipuzcoa, Spain

Phone : [phone]
Website: http://sites.google.com/site/iargandacarreras/
<http://biocomp.cnb.csic.es/~iarganda/index_EN.html>

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ImageJ mailing list: http://imagej.nih.gov/ij/list.html

[Anne Chetty]

Hi Ignacio,

I do somewhat similar measurements for Western blots. For immunostain when
you use the same,  do you have to go to edit, invert first and then do
measurements?

2. How do i keep the same area to measure different intensities in
different figures.  Appreciate your help.

Thanks,
 Anne

Anne

On Wed, Oct 19, 2016 at 10:45 AM, Ignacio Arganda-Carreras <
[hidden email]> wrote:

> Hello Anne,
>
> You need to delineate your regions of interest using a selection tool and
> then click on Analyze > Measure.
>
> Have a look at the manual entry for the Analyze menu:
> http://imagej.net/ij/docs/guide/146-30.html
>
> Cheers!
>
> ignacio
>
> On Mon, Oct 17, 2016 at 7:03 PM, Anne Chetty <[hidden email]> wrote:
>
> > I am trying to measure immunohistochemistry stains in a lung specimens.
> > How do i measure the area and or intensity of certain stains using
> imageJ?
> >
> > Thanks, Anne
> >
> > --
> > ImageJ mailing list: http://imagej.nih.gov/ij/list.html
> >
>
>
>
> --
> Ignacio Arganda-Carreras, Ph.D.
> Ikerbasque Research Fellow
> Departamento de Ciencia de la Computacion e Inteligencia Artificial
> Facultad de Informatica, Universidad del Pais Vasco
> Paseo de Manuel Lardizabal, 1
> 20018 Donostia-San Sebastian
> Guipuzcoa, Spain
>
> Phone : [phone]
> Website: http://sites.google.com/site/iargandacarreras/
> <http://biocomp.cnb.csic.es/~iarganda/index_EN.html>
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

--
ImageJ mailing list: http://imagej.nih.gov/ij/list.html

[Ignacio Arganda-Carreras-2]

Hello Anne,


I do somewhat similar measurements for Western blots. For immunostain when
> you use the same,  do you have to go to edit, invert first and then do
> measurements?
>

If you want to measure the real intensity values, you shouldn't invert the
image (unless it was already inverted).


>
> 2. How do i keep the same area to measure different intensities in
> different figures.  Appreciate your help.
>

For that, ImageJ has the ROI Manager
<http://imagej.net/ij/docs/guide/146-30.html#sub:ROI-Manager...>, where you
can store the selections you made on one image and use them later on
another image.

Cheers!

PS: I recommend you to post your questions in the ImageJ forum
<http://forum.imagej.net> in the future as well.

>
> Thanks,
>  Anne
>
> Anne
>
> On Wed, Oct 19, 2016 at 10:45 AM, Ignacio Arganda-Carreras <
> [hidden email]> wrote:
>
> > Hello Anne,
> >
> > You need to delineate your regions of interest using a selection tool and
> > then click on Analyze > Measure.
> >
> > Have a look at the manual entry for the Analyze menu:
> > http://imagej.net/ij/docs/guide/146-30.html
> >
> > Cheers!
> >
> > ignacio
> >
> > On Mon, Oct 17, 2016 at 7:03 PM, Anne Chetty <[hidden email]> wrote:
> >
> > > I am trying to measure immunohistochemistry stains in a lung specimens.
> > > How do i measure the area and or intensity of certain stains using
> > imageJ?
> > >
> > > Thanks, Anne
> > >
> > > --
> > > ImageJ mailing list: http://imagej.nih.gov/ij/list.html
> > >
> >
> >
> >
> > --
> > Ignacio Arganda-Carreras, Ph.D.
> > Ikerbasque Research Fellow
> > Departamento de Ciencia de la Computacion e Inteligencia Artificial
> > Facultad de Informatica, Universidad del Pais Vasco
> > Paseo de Manuel Lardizabal, 1
> > 20018 Donostia-San Sebastian
> > Guipuzcoa, Spain
> >
> > Phone : [phone]
> > Website: http://sites.google.com/site/iargandacarreras/
> > <http://biocomp.cnb.csic.es/~iarganda/index_EN.html>
> >
> > --
> > ImageJ mailing list: http://imagej.nih.gov/ij/list.html
> >
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

--
Ignacio Arganda-Carreras, Ph.D.
Ikerbasque Research Fellow
Departamento de Ciencia de la Computacion e Inteligencia Artificial
Facultad de Informatica, Universidad del Pais Vasco
Paseo de Manuel Lardizabal, 1
20018 Donostia-San Sebastian
Guipuzcoa, Spain

Phone : [phone]
Website: http://sites.google.com/site/iargandacarreras/
<http://biocomp.cnb.csic.es/~iarganda/index_EN.html>

--
ImageJ mailing list: http://imagej.nih.gov/ij/list.html

[Gabriel Landini]

On Wednesday 19 Oct 2016 11:20:21 Anne Chetty wrote:
> I do somewhat similar measurements for Western blots. For immunostain when
> you use the same,  do you have to go to edit, invert first and then do
> measurements?
>
> 2. How do i keep the same area to measure different intensities in
> different figures.  Appreciate your help.

Please be aware that measuring "immunostain intensity" is not a sound approach
to quantify antigen expression.

Please see here:
https://list.nih.gov/cgi-bin/wa.exe?A2=ind0902&L=IMAGEJ&P=R18412

Regards

Gabriel

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ImageJ mailing list: http://imagej.nih.gov/ij/list.html

[Anne Chetty]

Thank you very much.  Appreciate it.

On Thu, Oct 20, 2016 at 3:58 AM, Gabriel Landini <[hidden email]>
wrote:

> On Wednesday 19 Oct 2016 11:20:21 Anne Chetty wrote:
> > I do somewhat similar measurements for Western blots. For immunostain
> when
> > you use the same,  do you have to go to edit, invert first and then do
> > measurements?
> >
> > 2. How do i keep the same area to measure different intensities in
> > different figures.  Appreciate your help.
>
> Please be aware that measuring "immunostain intensity" is not a sound
> approach
> to quantify antigen expression.
>
> Please see here:
> https://list.nih.gov/cgi-bin/wa.exe?A2=ind0902&L=IMAGEJ&P=R18412
>
> Regards
>
> Gabriel
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

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ImageJ mailing list: http://imagej.nih.gov/ij/list.html