Brown staining

[Pang, Zhengyu (GE Global Research)]

Dear all,

Does anyone have some experience on identify brown staining for
histoimmunostaining image? If original RGBimage is tranlated to HSV
image. What is Hue, saturation, and value for Brown color? Could you
give me some reference or the direct answer?

Thanks,

Zhengyu

> g Global Research Center
>
> ______________________________________________________________________
>
>           Zhengyu Pang, Ph.D.
                        Bioanalytics and Protein Science Laboratory
                        Biosciences Global Technology Organization
> One Research Circle, K1 5B34
> Niskayuna, NY12309
> * [hidden email]
> *[phone]
>
>

[No Name-4]

Zhengyu,

You should take a look at the 'Colour Deconvolution' plugin by Gabriel
Landini. I think that you will like the results much better than a
traditional hue-based pixel classification method.

Here's the wiki:
http://imagejdocu.tudor.lu/imagej-documentation-wiki/plugins/colour_deconvolution

Cheers,
Jim

Jim Deeds
Novartis Institute for BioMedical Research, Inc.
Oncology Target Biomarkers US, Building 600 / 4C-421-01
250 Mass Avenue, Cambridge, MA 02139
[hidden email]
Tel: [phone]



"Pang, Zhengyu (GE, Research)" <[hidden email]>
Sent by: ImageJ Interest Group <[hidden email]>
09/20/2007 01:44 PM
Please respond to
ImageJ Interest Group <[hidden email]>


To
[hidden email]
cc

Subject
Brown staining






Dear all,

Does anyone have some experience on identify brown staining for
histoimmunostaining image? If original RGBimage is tranlated to HSV
image. What is Hue, saturation, and value for Brown color? Could you
give me some reference or the direct answer?

Thanks,

Zhengyu

>                                g Global Research Center
>
> ______________________________________________________________________
>
>           Zhengyu Pang, Ph.D.
                                                 Bioanalytics and Protein
Science Laboratory
                                                 Biosciences Global
Technology Organization
>                                One Research Circle, K1 5B34
>                                Niskayuna, NY12309
>                                * [hidden email]
>                                *[phone]
>
>


_________________________

CONFIDENTIALITY NOTICE

The information contained in this e-mail message is intended only for the
exclusive use of the individual or entity named above and may contain
information that is privileged, confidential or exempt from disclosure
under applicable law. If the reader of this message is not the intended
recipient, or the employee or agent responsible for delivery of the
message to the intended recipient, you are hereby notified that any
dissemination, distribution or copying of this communication is strictly
prohibited. If you have received this communication in error, please
notify the sender immediately by e-mail and delete the material from any
computer.  Thank you.

[Toby Cornish]

Zhengyu,

I have considerable experience using ImageJ to quantitate brown (DAB) IHC staining on TMAs.

If you aren't familiar with the HSV colorspace, please refer to wikipedia. There is an excellent article on colorspaces.  Brown, unfortunately has a broad absorbance spectrum and therefore the hue value stretches across the hue range.  I can recommend colorspace inspector and color segmentation plugins to help understand how brown pixels can be segmented using HSV colorspace segmentation (G. Landini's threshold color). links here:

  http://rsb.info.nih.gov/ij/plugins/color-inspector.html 

  http://www.dentistry.bham.ac.uk/landinig/software/software.html 

At JHU we have produced an application (using ImageJ libraries) for HSV-based quantitation of IHC staining, FrIDA.  You can test it here:

  http://bui2.win.ad.jhu.edu/frida/ 

and source is available from sourceforge (the project name is fridajhu).

I have used both color deconvolution and HSV colorspace segmentation for IHC quantitation, and I have ImageJ macros for performing color deconvolution as well.  There are caveats with both methods, the discussion of which would be off topic in this forum.

Please contact me if you need additional assistance.

toby


Toby C. Cornish, M.D., Ph.D.
Pathology Resident
Johns Hopkins Medical Institutions
[hidden email]