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Author:

Puttapirat, Pargorn (Puttapirat, Pargorn.) | Li, Chen (Li, Chen.) | Zhang, Haichuan (Zhang, Haichuan.) | Deng, Jingyi (Deng, Jingyi.) | Dong, Yuxin (Dong, Yuxin.) | Shi, Jiangbo (Shi, Jiangbo.) | He, Hongyu (He, Hongyu.) | Gao, Zeyu (Gao, Zeyu.) | Wang, Chunbao (Wang, Chunbao.) | Zhang, Xiangrong (Zhang, Xiangrong.)

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Abstract:

Transition from conventional to digital pathology requires a new category of biomedical informatic infrastructure which could facilitate delicate pathological routine. Pathological diagnoses are sensitive to many external factors and is known to be subjective. Only systems that can meet strict requirements in pathology would be able to run along pathological routines and eventually digitized the area, and the developed platform should comply with existing pathological routines and international standards. Currently, there are a number of available software tools which can perform histopathological tasks including virtual slide viewing, annotating, and basic image analysis, however, none of them can serve as a digital platform for pathology. Here we describe OpenHI2, an enhanced version Open Histopathological Image platform which is capable of supporting all basic pathological tasks and file formats; ready to be deployed in medical institutions on a standard server environment or cloud computing infrastructure. In this paper, we also describe the development decisions for the platform and propose solutions to overcome technical challenges including responsive region retrieval and viewing, virtual slide magnification, recording of diagnostic areas. These factors would promote OpenHI2 be used as a platform for histopathological images in real-world clinical settings. Furthermore, in research, OpenHI2 inherited the annotation functionality from the previous version, thus acquired annotations can be directly utilized by the newly added machine learning module which include popular machine learning models to perform tasks such as histology image classification and segmentation in the same environment. Addition can be made to the platform since each component is modularized and fully documented. OpenHI2 is free, open-source, and available at https://gitlab.com/BioAI/OpenHI. © 2019 IEEE.

Keyword:

Bioinformatics Diagnosis Image enhancement Image segmentation Machine learning Medical imaging Open source software Pathology

Author Community:

  • [ 1 ] [Puttapirat, Pargorn]Shaanxi Province Key Laboratory of Satellite and Terrestrial Network Tech. RD, Xi'an Jiaotong University, Xi'an, Shaanxi; 710049, China
  • [ 2 ] [Puttapirat, Pargorn]Xi'an Jiaotong University, Department of Software Engineering, Xian, Shaanxi; 710049, China
  • [ 3 ] [Puttapirat, Pargorn]School of Electrical Engineering, Xi'an Jiaotong University, Department of Power System and Automation, Xi'an, Shaanxi; 710049, China
  • [ 4 ] [Li, Chen]Shaanxi Province Key Laboratory of Satellite and Terrestrial Network Tech. RD, Xi'an Jiaotong University, Xi'an, Shaanxi; 710049, China
  • [ 5 ] [Li, Chen]Xi'an Jiaotong University, Department of Software Engineering, Xian, Shaanxi; 710049, China
  • [ 6 ] [Li, Chen]School of Electrical Engineering, Xi'an Jiaotong University, Department of Power System and Automation, Xi'an, Shaanxi; 710049, China
  • [ 7 ] [Zhang, Haichuan]School of Electrical Engineering, Xi'an Jiaotong University, Department of Power System and Automation, Xi'an, Shaanxi; 710049, China
  • [ 8 ] [Zhang, Haichuan]First Affiliated Hospital of Xi'an Jiaotong University, Department of Pathology, Xi'an, Shaanxi; 710061, China
  • [ 9 ] [Deng, Jingyi]Shaanxi Province Key Laboratory of Satellite and Terrestrial Network Tech. RD, Xi'an Jiaotong University, Xi'an, Shaanxi; 710049, China
  • [ 10 ] [Deng, Jingyi]Xi'an Jiaotong University, Department of Software Engineering, Xian, Shaanxi; 710049, China
  • [ 11 ] [Deng, Jingyi]School of Electrical Engineering, Xi'an Jiaotong University, Department of Power System and Automation, Xi'an, Shaanxi; 710049, China
  • [ 12 ] [Dong, Yuxin]Shaanxi Province Key Laboratory of Satellite and Terrestrial Network Tech. RD, Xi'an Jiaotong University, Xi'an, Shaanxi; 710049, China
  • [ 13 ] [Dong, Yuxin]Xi'an Jiaotong University, Department of Software Engineering, Xian, Shaanxi; 710049, China
  • [ 14 ] [Dong, Yuxin]School of Electrical Engineering, Xi'an Jiaotong University, Department of Power System and Automation, Xi'an, Shaanxi; 710049, China
  • [ 15 ] [Shi, Jiangbo]Institute of Intelligent Information Processing, Xidian University, Xi'an, Shaanxi; 710071, China
  • [ 16 ] [He, Hongyu]Shaanxi Province Key Laboratory of Satellite and Terrestrial Network Tech. RD, Xi'an Jiaotong University, Xi'an, Shaanxi; 710049, China
  • [ 17 ] [He, Hongyu]Xi'an Jiaotong University, Department of Software Engineering, Xian, Shaanxi; 710049, China
  • [ 18 ] [He, Hongyu]School of Electrical Engineering, Xi'an Jiaotong University, Department of Power System and Automation, Xi'an, Shaanxi; 710049, China
  • [ 19 ] [Gao, Zeyu]Institute of Intelligent Information Processing, Xidian University, Xi'an, Shaanxi; 710071, China
  • [ 20 ] [Wang, Chunbao]First Affiliated Hospital of Xi'an Jiaotong University, Department of Pathology, Xi'an, Shaanxi; 710061, China
  • [ 21 ] [Zhang, Xiangrong]Shaanxi Province Key Laboratory of Satellite and Terrestrial Network Tech. RD, Xi'an Jiaotong University, Xi'an, Shaanxi; 710049, China
  • [ 22 ] [Zhang, Xiangrong]Xi'an Jiaotong University, Department of Software Engineering, Xian, Shaanxi; 710049, China
  • [ 23 ] [Zhang, Xiangrong]School of Electrical Engineering, Xi'an Jiaotong University, Department of Power System and Automation, Xi'an, Shaanxi; 710049, China

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Year: 2019

Page: 2696-2701

Language: English

Cited Count:

WoS CC Cited Count: 0

SCOPUS Cited Count: 2

ESI Highly Cited Papers on the List: 0 Unfold All

WanFang Cited Count:

Chinese Cited Count:

30 Days PV: 9

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