Difference between revisions of "Digital pathology"

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(Whole-Slide Images: Virtual microscopy)
 
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*Typical cytology slide ~ 5 GB.
 
*Typical cytology slide ~ 5 GB.
 
*Typical anatomical pathology slide > 2 GB.
 
*Typical anatomical pathology slide > 2 GB.
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==Whole-Slide Images==
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*Most common formats:
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    Aperio (.svs, .tif)
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    Philips (.tiff)
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    Hamamatsu (.vms, .vmu, .ndpi)
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    Leica (.scn)
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    Sakura (.svslide)
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    MIRAX (.mrxs)
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    Ventana (.bif, .tif)
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    Generic tiled TIFF (.tif)
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[https://imagej.net/SlideJ SlideJ] is a plugin for ImageJ for viewing most of the above mentioned formats.<ref>{{Cite journal  | last1 = Della Mea | first1 = V. | last2 = Baroni | first2 = GL. | last3 = Pilutti | first3 = D. | last4 = Di Loreto | first4 = C. | title = SlideJ: An ImageJ plugin for automated processing of whole slide images. | journal = PLoS One | volume = 12 | issue = 7 | pages = e0180540 | month =  | year = 2017 | doi = 10.1371/journal.pone.0180540 | PMID = 28683129 }}</ref> A free C library exists to read whole-slide images.<ref>URL: [http://openslide.org/ http://openslide.org/]. Accessed on: 3 May 2013.</ref>
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*There is a push for an open virtual slide format.
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*There is now a [http://dicom.nema.org/Dicom/DICOMWSI/ DICOM] standard for whole slide images.
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* Most important criterion for virtual microscopy: Pathologists need the ability to rapidly pan and zoom images. When Z‑planes are available, viewers must also provide rapid scrolling though the planes.
  
 
==See also==
 
==See also==

Latest revision as of 09:05, 16 October 2019

Digital pathology is pathology done with a digital computer.

Digital slides

  • Typical cytology slide ~ 5 GB.
  • Typical anatomical pathology slide > 2 GB.

Whole-Slide Images

  • Most common formats:
   Aperio (.svs, .tif)
   Philips (.tiff)
   Hamamatsu (.vms, .vmu, .ndpi)
   Leica (.scn)
   Sakura (.svslide)
   MIRAX (.mrxs)
   Ventana (.bif, .tif)
   Generic tiled TIFF (.tif)

SlideJ is a plugin for ImageJ for viewing most of the above mentioned formats.[1] A free C library exists to read whole-slide images.[2]

  • There is a push for an open virtual slide format.
  • There is now a DICOM standard for whole slide images.
  • Most important criterion for virtual microscopy: Pathologists need the ability to rapidly pan and zoom images. When Z‑planes are available, viewers must also provide rapid scrolling though the planes.

See also

External links

  • Della Mea, V.; Baroni, GL.; Pilutti, D.; Di Loreto, C. (2017). "SlideJ: An ImageJ plugin for automated processing of whole slide images.". PLoS One 12 (7): e0180540. doi:10.1371/journal.pone.0180540. PMID 28683129.
  • URL: http://openslide.org/. Accessed on: 3 May 2013.