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  • About the Usage of Digital Pathology
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  1. Computational, Digital & Mathematical Pathology

Digital Pathology

PreviousMetastasisNextDijital Patoloji'ye Dair

Last updated 9 months ago

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Digital Pathology & AI in routine clinical practice:From quality control to primary cancer diagnosis

QuPath

QuPath'ın validasyonu kolon tümörlerinde CD3, CD8, p53 ve PD-L1 skorlaması yanısıra H&E preparatlarındaki tümör-stroma oranı ile yapılmış. Örnekler TMA üzerinde, kod ile ve otomatik analiz ile skorlanmış. Önemli bir nokta skorlamalar sağ kalım ile de karşılaştırılmış.

QuPath'ın oldukça iyi eğitim dökümanları var:

Makaledeki videolar şunlar:

Makalenin referans verdiği diğer dijital analiz araçlarının makaleleri ise şunlar:

  • Websites

Cancer Digital Slide Archive: an informatics resource to support integrated in silico analysis of TCGA pathology data

  • Johns Hopkins Pathology Unknowns

  • Softwares

  • Easy Scanner

  • Smartphone Whole Slide Imaging(sWSI) Demo--Low Cost Slide Scanner.

  • Google's interest in digital pathology is very important for our field. See 55th minute

  • Detecting Cancer Metastases on Gigapixel Pathology Images

  • Manual Microscope Image Stitching

  • Motic EASY SCAN PRO Pathology Slide Scanner

  • Metadata matters: access to image data in the real world

  • Detecting cancer in real-time with machine learning

  • Whole Slide Imaging Versus Microscopy for Primary Diagnosis in Surgical Pathology: A Multicenter Blinded Randomized Noninferiority Study of 1992 Cases (Pivotal Study).

  • The Gold Standard Paradox in Digital Image Analysis Manual Versus Automated Scoring as Ground Truth

About the Usage of Digital Pathology

  • Whole Slide Imaging Versus Microscopy for Primary Diagnosis in Surgical Pathology: A Multicenter Blinded Randomized Noninferiority Study of 1992 Cases (Pivotal Study).

  • The Gold Standard Paradox in Digital Image Analysis Manual Versus Automated Scoring as Ground Truth

  • Whole Slide Imaging Versus Microscopy for Primary Diagnosis in Surgical Pathology: A Multicenter Blinded Randomized Noninferiority Study of 1992 Cases (Pivotal Study).

  • The Gold Standard Paradox in Digital Image Analysis Manual Versus Automated Scoring as Ground Truth

  • Whole Slide Imaging Versus Microscopy for Primary Diagnosis in Surgical Pathology: A Multicenter Blinded Randomized Noninferiority Study of 1992 Cases (Pivotal Study).

  • The Gold Standard Paradox in Digital Image Analysis Manual Versus Automated Scoring as Ground Truth

Digital Pathology

QuPath'ın validasyonu kolon tümörlerinde CD3, CD8, p53 ve PD-L1 skorlaması yanısıra H&E preparatlarındaki tümör-stroma oranı ile yapılmış. Örnekler TMA üzerinde, kod ile ve otomatik analiz ile skorlanmış. Önemli bir nokta skorlamalar sağ kalım ile de karşılaştırılmış.

QuPath'ın oldukça iyi eğitim dökümanları var:

Makaledeki videolar şunlar:

Makalenin referans verdiği diğer dijital analiz araçlarının makaleleri ise şunlar:

  • Websites

Cancer Digital Slide Archive: an informatics resource to support integrated in silico analysis of TCGA pathology data

  • Johns Hopkins Pathology Unknowns

  • Softwares

  • Easy Scanner

  • Smartphone Whole Slide Imaging(sWSI) Demo--Low Cost Slide Scanner.

  • Google's interest in digital pathology is very important for our field. See 55th minute

  • Detecting Cancer Metastases on Gigapixel Pathology Images

  • Manual Microscope Image Stitching

  • Motic EASY SCAN PRO Pathology Slide Scanner

  • Metadata matters: access to image data in the real world

  • Detecting cancer in real-time with machine learning

QuPath'ın validasyonu kolon tümörlerinde CD3, CD8, p53 ve PD-L1 skorlaması yanısıra H&E preparatlarındaki tümör-stroma oranı ile yapılmış. Örnekler TMA üzerinde, kod ile ve otomatik analiz ile skorlanmış. Önemli bir nokta skorlamalar sağ kalım ile de karşılaştırılmış.

QuPath'ın oldukça iyi eğitim dökümanları var:

Makaledeki videolar şunlar:

Makalenin referans verdiği diğer dijital analiz araçlarının makaleleri ise şunlar:

  • Websites

Cancer Digital Slide Archive: an informatics resource to support integrated in silico analysis of TCGA pathology data

  • Johns Hopkins Pathology Unknowns

  • Softwares

  • Easy Scanner

  • Smartphone Whole Slide Imaging(sWSI) Demo--Low Cost Slide Scanner.

  • Google's interest in digital pathology is very important for our field. See 55th minute

  • Detecting Cancer Metastases on Gigapixel Pathology Images

  • Manual Microscope Image Stitching

  • Motic EASY SCAN PRO Pathology Slide Scanner

  • Metadata matters: access to image data in the real world

  • Detecting cancer in real-time with machine learning


  • Single slide scanner


Mac OS için.svsdosyalarını açacak program ararken bulmuştum 'ı.

'yu rutin tanılarda ben kullanıyordum. Elbette tanı için direk oradaki çıkan sayıyı vermiyordum ama kendimi eğitmek için iyi bir araçtı. 'den ise pek iyi sonuç alamamıştım.

Arch Pathol Lab Med. 2017 May 30. PMID: 28557614 DOI:

Arch Pathol Lab Med. 2017 May 30. PMID: 28557614 DOI:

Arch Pathol Lab Med. 2017 May 30. PMID: 28557614 DOI:

Arch Pathol Lab Med. 2017 May 30. PMID: 28557614 DOI:

Mac OS için.svsdosyalarını açacak program ararken bulmuştum 'ı.

'yu rutin tanılarda ben kullanıyordum. Elbette tanı için direk oradaki çıkan sayıyı vermiyordum ama kendimi eğitmek için iyi bir araçtı. 'den ise pek iyi sonuç alamamıştım.

Mac OS için.svsdosyalarını açacak program ararken bulmuştum 'ı.

'yu rutin tanılarda ben kullanıyordum. Elbette tanı için direk oradaki çıkan sayıyı vermiyordum ama kendimi eğitmek için iyi bir araçtı. 'den ise pek iyi sonuç alamamıştım.

https://www.youtube.com/watch?v=7pRmonus9iM
Microvisioneer
Argenit
X-WOW
QuPath
QuPath: Open source software for digital pathology image analysis
Scientific Reports volume 7, Article number: 16878 (2017)
doi:10.1038/s41598-017-17204-5
https://github.com/qupath/qupath/wiki
MOESM2_ESM.mov
MOESM3_ESM.mov
NIH Image to ImageJ: 25 years of image analysis
Fiji: an open-source platform for biological-image analysis
Icy: an open bioimage informatics platform for extended reproducible research
CellProfiler™: free, versatile software for automated biological image analysis
OpenSlide: A vendor-neutral software foundation for digital pathology
SlideToolkit: An Assistive Toolset for the Histological Quantification of Whole Slide Images
Collaborative analysis of multi-gigapixel imaging data using Cytomine
Immunoratio
Immunomembrane
ImmunoRatio: a publicly available web application for quantitative image analysis of estrogen receptor (ER), progesterone receptor (PR), and Ki-67
https://digitalpathologyassociation.org/whole-slide-imaging-repository
https://digitalpathologyassociation.org/
https://pathpresenter.com/
http://www.rosaicollection.org/
http://cancer.digitalslidearchive.net/
https://academic.oup.com/jamia/article/20/6/1091/703483
https://digital.pathology.johnshopkins.edu/repos/451
http://www.virasoft.com.tr/
http://en.mydigipath.com/
https://qupath.github.io/
http://www.microvisioneer.com/
http://virtualvizyon.com/
https://easyzoom.com/
https://twitter.com/argenitt/status/814824189345624064
https://www.youtube.com/watch?v=orcYKy19mjQ
https://micro-manager.org/
https://youtu.be/Y2VF8tmLFHw?t=55m11s
Assisting Pathologists in Detecting Cancer with Deep Learning
https://research.googleblog.com/2017/03/assisting-pathologists-in-detecting.html
https://arxiv.org/abs/1703.02442
https://www.meyerinst.com/digital/image-stitching/
https://www.meyerinst.com/motic-easy-scan-pro-digital-slide-scanner/
https://www.viewsiq.com/panoptiq
http://jcb.rupress.org/content/189/5/777
https://www.youtube.com/watch?v=9Mz84cwVmS0
An Augmented Reality Microscope for Cancer Detection
An Augmented Reality Microscope for Real-time Automated Detection of Cancer
http://journals.lww.com/ajsp/Abstract/publishahead/Whole_Slide_Imaging_Versus_Microscopy_for_Primary.97978.aspx
10.5858/arpa.2016-0386-RA
http://journals.lww.com/ajsp/Abstract/publishahead/Whole_Slide_Imaging_Versus_Microscopy_for_Primary.97978.aspx
10.5858/arpa.2016-0386-RA
http://journals.lww.com/ajsp/Abstract/publishahead/Whole_Slide_Imaging_Versus_Microscopy_for_Primary.97978.aspx
10.5858/arpa.2016-0386-RA
http://journals.lww.com/ajsp/Abstract/publishahead/Whole_Slide_Imaging_Versus_Microscopy_for_Primary.97978.aspx
10.5858/arpa.2016-0386-RA
QuPath
QuPath: Open source software for digital pathology image analysis
Scientific Reports volume 7, Article number: 16878 (2017)
doi:10.1038/s41598-017-17204-5
https://github.com/qupath/qupath/wiki
MOESM2_ESM.mov
MOESM3_ESM.mov
NIH Image to ImageJ: 25 years of image analysis
Fiji: an open-source platform for biological-image analysis
Icy: an open bioimage informatics platform for extended reproducible research
CellProfiler™: free, versatile software for automated biological image analysis
OpenSlide: A vendor-neutral software foundation for digital pathology
SlideToolkit: An Assistive Toolset for the Histological Quantification of Whole Slide Images
Collaborative analysis of multi-gigapixel imaging data using Cytomine
Immunoratio
Immunomembrane
ImmunoRatio: a publicly available web application for quantitative image analysis of estrogen receptor (ER), progesterone receptor (PR), and Ki-67
https://digitalpathologyassociation.org/whole-slide-imaging-repository
https://digitalpathologyassociation.org/
https://pathpresenter.com/
http://www.rosaicollection.org/
http://cancer.digitalslidearchive.net/
https://academic.oup.com/jamia/article/20/6/1091/703483
https://digital.pathology.johnshopkins.edu/repos/451
http://www.virasoft.com.tr/
http://en.mydigipath.com/
https://qupath.github.io/
http://www.microvisioneer.com/
http://virtualvizyon.com/
https://easyzoom.com/
https://twitter.com/argenitt/status/814824189345624064
https://www.youtube.com/watch?v=orcYKy19mjQ
https://micro-manager.org/
https://youtu.be/Y2VF8tmLFHw?t=55m11s
Assisting Pathologists in Detecting Cancer with Deep Learning
https://research.googleblog.com/2017/03/assisting-pathologists-in-detecting.html
https://arxiv.org/abs/1703.02442
https://www.meyerinst.com/digital/image-stitching/
https://www.meyerinst.com/motic-easy-scan-pro-digital-slide-scanner/
https://www.viewsiq.com/panoptiq
http://jcb.rupress.org/content/189/5/777
https://www.youtube.com/watch?v=9Mz84cwVmS0
An Augmented Reality Microscope for Cancer Detection
An Augmented Reality Microscope for Real-time Automated Detection of Cancer
QuPath
QuPath: Open source software for digital pathology image analysis
Scientific Reports volume 7, Article number: 16878 (2017)
doi:10.1038/s41598-017-17204-5
https://github.com/qupath/qupath/wiki
MOESM2_ESM.mov
MOESM3_ESM.mov
NIH Image to ImageJ: 25 years of image analysis
Fiji: an open-source platform for biological-image analysis
Icy: an open bioimage informatics platform for extended reproducible research
CellProfiler™: free, versatile software for automated biological image analysis
OpenSlide: A vendor-neutral software foundation for digital pathology
SlideToolkit: An Assistive Toolset for the Histological Quantification of Whole Slide Images
Collaborative analysis of multi-gigapixel imaging data using Cytomine
Immunoratio
Immunomembrane
ImmunoRatio: a publicly available web application for quantitative image analysis of estrogen receptor (ER), progesterone receptor (PR), and Ki-67
https://digitalpathologyassociation.org/whole-slide-imaging-repository
https://digitalpathologyassociation.org/
https://pathpresenter.com/
http://www.rosaicollection.org/
http://cancer.digitalslidearchive.net/
https://academic.oup.com/jamia/article/20/6/1091/703483
https://digital.pathology.johnshopkins.edu/repos/451
http://www.virasoft.com.tr/
http://en.mydigipath.com/
https://qupath.github.io/
http://www.microvisioneer.com/
http://virtualvizyon.com/
https://easyzoom.com/
https://twitter.com/argenitt/status/814824189345624064
https://www.youtube.com/watch?v=orcYKy19mjQ
https://micro-manager.org/
https://youtu.be/Y2VF8tmLFHw?t=55m11s
Assisting Pathologists in Detecting Cancer with Deep Learning
https://research.googleblog.com/2017/03/assisting-pathologists-in-detecting.html
https://arxiv.org/abs/1703.02442
https://www.meyerinst.com/digital/image-stitching/
https://www.meyerinst.com/motic-easy-scan-pro-digital-slide-scanner/
https://www.viewsiq.com/panoptiq
http://jcb.rupress.org/content/189/5/777
https://www.youtube.com/watch?v=9Mz84cwVmS0
An Augmented Reality Microscope for Cancer Detection
An Augmented Reality Microscope for Real-time Automated Detection of Cancer
optiscan
5 Ways to Make Histopathology Image Models More Robust to Domain Shifts: Exploring a variety of approaches: stain normalization, color augmentation, adversarial domain adaptation, model adaptation, and finetuning
5 Ways to Make Histopathology Image Models More Robust to Domain Shifts
Affordable Whole Slide Imaging | MicrovisioneerMicrovisioneer
Ana SayfaArgenit - Akıllı Bilişim Teknolojileri
X-WOW Whole Slide Scanning SystemX-WOW!
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