Pathology and Social Media
Pathophysiology
Carcinogenesis, Hallmarks of Cancer

Digital Pathology

Digital Pathology

Digital Pathology

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

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: Open source software for digital pathology image analysis Scientific Reports volume 7, Article number: 16878 (2017) doi:10.1038/s41598-017-17204-5

QuPath'ın oldukça iyi eğitim dökümanları var:

https://github.com/qupath/qupath/wiki

Makaledeki videolar şunlar:

MOESM2_ESM.mov

MOESM3_ESM.mov

Makalenin referans verdiği diğer dijital analiz araçlarının makaleleri ise şunlar:

https://digitalpathologyassociation.org/whole-slide-imaging-repository

https://digitalpathologyassociation.org/

  • Websites

https://pathpresenter.com/

http://www.rosaicollection.org/

http://cancer.digitalslidearchive.net/

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

https://academic.oup.com/jamia/article/20/6/1091/703483

  • Johns Hopkins Pathology Unknowns

https://digital.pathology.johnshopkins.edu/repos/451

  • Softwares

http://www.virasoft.com.tr/

http://en.mydigipath.com/

https://qupath.github.io/

http://www.microvisioneer.com/

http://virtualvizyon.com/

https://easyzoom.com/

  • Easy Scanner

https://twitter.com/argenitt/status/814824189345624064

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

https://www.youtube.com/watch?v=orcYKy19mjQ

https://micro-manager.org/

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

https://youtu.be/Y2VF8tmLFHw?t=55m11s

https://research.googleblog.com/2017/03/assisting-pathologists-in-detecting.html

  • Detecting Cancer Metastases on Gigapixel Pathology Images

https://arxiv.org/abs/1703.02442

  • Manual Microscope Image Stitching

https://www.meyerinst.com/digital/image-stitching/

  • Motic EASY SCAN PRO Pathology Slide Scanner

https://www.meyerinst.com/motic-easy-scan-pro-digital-slide-scanner/

https://www.viewsiq.com/panoptiq

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

http://jcb.rupress.org/content/189/5/777

  • Detecting cancer in real-time with machine learning

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

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

http://journals.lww.com/ajsp/Abstract/publishahead/Whole_Slide_Imaging_Versus_Microscopy_for_Primary.97978.aspx

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

Arch Pathol Lab Med. 2017 May 30. PMID: 28557614 DOI: 10.5858/arpa.2016-0386-RA

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).

http://journals.lww.com/ajsp/Abstract/publishahead/Whole_Slide_Imaging_Versus_Microscopy_for_Primary.97978.aspx

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

Arch Pathol Lab Med. 2017 May 30. PMID: 28557614 DOI: 10.5858/arpa.2016-0386-RA

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

http://journals.lww.com/ajsp/Abstract/publishahead/Whole_Slide_Imaging_Versus_Microscopy_for_Primary.97978.aspx

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

Arch Pathol Lab Med. 2017 May 30. PMID: 28557614 DOI: 10.5858/arpa.2016-0386-RA

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

http://journals.lww.com/ajsp/Abstract/publishahead/Whole_Slide_Imaging_Versus_Microscopy_for_Primary.97978.aspx

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

Arch Pathol Lab Med. 2017 May 30. PMID: 28557614 DOI: 10.5858/arpa.2016-0386-RA

Digital Pathology

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

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: Open source software for digital pathology image analysis Scientific Reports volume 7, Article number: 16878 (2017) doi:10.1038/s41598-017-17204-5

QuPath'ın oldukça iyi eğitim dökümanları var:

https://github.com/qupath/qupath/wiki

Makaledeki videolar şunlar:

MOESM2_ESM.mov

MOESM3_ESM.mov

Makalenin referans verdiği diğer dijital analiz araçlarının makaleleri ise şunlar:

https://digitalpathologyassociation.org/whole-slide-imaging-repository

https://digitalpathologyassociation.org/

  • Websites

https://pathpresenter.com/

http://www.rosaicollection.org/

http://cancer.digitalslidearchive.net/

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

https://academic.oup.com/jamia/article/20/6/1091/703483

  • Johns Hopkins Pathology Unknowns

https://digital.pathology.johnshopkins.edu/repos/451

  • Softwares

http://www.virasoft.com.tr/

http://en.mydigipath.com/

https://qupath.github.io/

http://www.microvisioneer.com/

http://virtualvizyon.com/

https://easyzoom.com/

  • Easy Scanner

https://twitter.com/argenitt/status/814824189345624064

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

https://www.youtube.com/watch?v=orcYKy19mjQ

https://micro-manager.org/

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

https://youtu.be/Y2VF8tmLFHw?t=55m11s

https://research.googleblog.com/2017/03/assisting-pathologists-in-detecting.html

  • Detecting Cancer Metastases on Gigapixel Pathology Images

https://arxiv.org/abs/1703.02442

  • Manual Microscope Image Stitching

https://www.meyerinst.com/digital/image-stitching/

  • Motic EASY SCAN PRO Pathology Slide Scanner

https://www.meyerinst.com/motic-easy-scan-pro-digital-slide-scanner/

https://www.viewsiq.com/panoptiq

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

http://jcb.rupress.org/content/189/5/777

  • Detecting cancer in real-time with machine learning

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

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

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: Open source software for digital pathology image analysis Scientific Reports volume 7, Article number: 16878 (2017) doi:10.1038/s41598-017-17204-5

QuPath'ın oldukça iyi eğitim dökümanları var:

https://github.com/qupath/qupath/wiki

Makaledeki videolar şunlar:

MOESM2_ESM.mov

MOESM3_ESM.mov

Makalenin referans verdiği diğer dijital analiz araçlarının makaleleri ise şunlar:

https://digitalpathologyassociation.org/whole-slide-imaging-repository

https://digitalpathologyassociation.org/

  • Websites

https://pathpresenter.com/

http://www.rosaicollection.org/

http://cancer.digitalslidearchive.net/

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

https://academic.oup.com/jamia/article/20/6/1091/703483

  • Johns Hopkins Pathology Unknowns

https://digital.pathology.johnshopkins.edu/repos/451

  • Softwares

http://www.virasoft.com.tr/

http://en.mydigipath.com/

https://qupath.github.io/

http://www.microvisioneer.com/

http://virtualvizyon.com/

https://easyzoom.com/

  • Easy Scanner

https://twitter.com/argenitt/status/814824189345624064

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

https://www.youtube.com/watch?v=orcYKy19mjQ

https://micro-manager.org/

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

https://youtu.be/Y2VF8tmLFHw?t=55m11s

https://research.googleblog.com/2017/03/assisting-pathologists-in-detecting.html

  • Detecting Cancer Metastases on Gigapixel Pathology Images

https://arxiv.org/abs/1703.02442

  • Manual Microscope Image Stitching

https://www.meyerinst.com/digital/image-stitching/

  • Motic EASY SCAN PRO Pathology Slide Scanner

https://www.meyerinst.com/motic-easy-scan-pro-digital-slide-scanner/

https://www.viewsiq.com/panoptiq

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

http://jcb.rupress.org/content/189/5/777

  • Detecting cancer in real-time with machine learning

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