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  • 1.  Recommendations for Spot Quantification Software?

    Posted 03-18-2025 12:25
    Hi All,
     
    I am part of a core you don't hear much of-an RPPA core-and am at my wit's end about finding replacement software for quantifying spots.  We are currently using Array-Pro Analyzer (APA) by Media Cybernetics, but will have to switch soon as this application does not work on Windows 10 or higher and our old Windows 7 computer is on its last legs.  Before APA, we used MicroVigene.  While we prefer APA over MicroVigene, we could potentially switch back, but are not sure if this application will work on Windows 10+ either.  We have also approached Mapix, but they require us to configure a lot of the application ourselves, which we do not have the time or resources to do.  I have also contacted Media Cybernetics about newer software; they indicated they have Image-Pro which potentially can be configured for our purposes, but they have been dragging their feet about confirming if this is possible.  (I also contacted Illumina, who said they do not have the type of software that meets our needs.)
     
    Does anyone have any other recommendations for potential software for protein arrays?  We use 16-bit grayscale TIFF images for quantification.
     
    Thanks in advance for your help!
     
    Doris
     
     
    Doris Siwak, PhD
    Senior Research Scientist
    IPCT/Genomic Medicine
    dsiwak@mdanderson.org
    T 832-750-0145 office
       713-792-5743 lab
    _________________________
     
     
     
    The information contained in this e-mail message may be privileged, confidential, and/or protected from disclosure. This e-mail message may contain protected health information (PHI); dissemination of PHI should comply with applicable federal and state laws. If you are not the intended recipient, or an authorized representative of the intended recipient, any further review, disclosure, use, dissemination, distribution, or copying of this message or any attachment (or the information contained therein) is strictly prohibited. If you think that you have received this e-mail message in error, please notify the sender by return e-mail and delete all references to it and its contents from your systems.


  • 2.  RE: Recommendations for Spot Quantification Software?

    Posted 30 days ago

    Hi,

     

    Sorry, out traveling so have to be quick. I'm happy to join for lunch.

     

     

    Andy Chitty

    Director, OHSU University Shared Resources 

    Drop-in Office Hours Friday at 10am  

    Mobile: 503-422-9347

    Email: chitty@ohsu.edu

     

     

     






  • 3.  RE: Recommendations for Spot Quantification Software?

    Posted 30 days ago

    Oops. Sorry. Wrong thread on my previous reply!

     

    Andy

     

     

     






  • 4.  RE: Recommendations for Spot Quantification Software?

    Posted 30 days ago

    Have you looked into Cell Profiler? It's an open-source image analysis software developed by Broad



    ------------------------------
    Yulia Surovtseva
    Yale University
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  • 5.  RE: Recommendations for Spot Quantification Software?

    Posted 30 days ago
    Hi Yulia,
     
    Thanks for the information!  I have not looked into Cell Profiler; I will take a look and see if it can work for us.
     
    Best,
    Doris
     
    Doris Siwak, PhD
    Senior Research Scientist
    IPCT/Genomic Medicine
    dsiwak@mdanderson.org
    T 832-750-0145 office
       713-792-5743 lab
    _________________________
     
     
     
    The information contained in this e-mail message may be privileged, confidential, and/or protected from disclosure. This e-mail message may contain protected health information (PHI); dissemination of PHI should comply with applicable federal and state laws. If you are not the intended recipient, or an authorized representative of the intended recipient, any further review, disclosure, use, dissemination, distribution, or copying of this message or any attachment (or the information contained therein) is strictly prohibited. If you think that you have received this e-mail message in error, please notify the sender by return e-mail and delete all references to it and its contents from your systems.