Bile Duct Segmentation Methods Under 3D Slicer Applied to ERCP: Advantages and Disadvantages

Abdelhadi Essamlali; Vincent Millot-Maysounabe; Marion Chartier; Grégoire Salin; Aymeric Becq; Lionel Arrivé; Marine Duboc Camus; Jérôme Szewczyk; Isabelle Claude

doi:doi:10.11648/j.ijbecs.20230904.11

Research Article |

Bile Duct Segmentation Methods Under 3D Slicer Applied to ERCP: Advantages and Disadvantages

Abdelhadi Essamlali^*, Vincent Millot-Maysounabe, Marion Chartier, Grégoire Salin, Aymeric Becq, Lionel Arrivé, Marine Duboc Camus, Jérôme Szewczyk, Isabelle Claude

Published in International Journal of Biomedical Engineering and Clinical Science (Volume 9, Issue 4)

Received: 11 September 2023 Accepted: 26 September 2023 Published: 9 November 2023

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Abstract

This article presents an evaluation of biliary tract segmentation methods used for 3D reconstruction, which may be very usefull in various critical interventions, such as endoscopic retrograde cholangiopancreatography (ERCP), using the 3D Slicer software. This article provides an assessment of biliary tract segmentation techniques employed for 3D reconstruction, which can prove highly valuable in diverse critical procedures like endoscopic retrograde cholangiopancreatography (ERCP) through the utilization of 3D Slicer software. Three different methods, namely thresholding, flood filling, and region growing, were assessed in terms of their advantages and disadvantages. The study involved 10 patient cases and employed quantitative indices and qualitative evaluation to assess the segmentations obtained by the different segmentation methods against ground truth. The results indicate that the thresholding method is almost manual and time-consuming, while the flood filling method is semi-automatic and also time-consuming. Although both methods improve segmentation quality, they are not reproducible. Therefore, an automatic method based on region growing was developed to reduce segmentation time, albeit at the expense of quality. These findings highlight the pros and cons of different conventional segmentation methods and underscore the need to explore alternative approaches, such as deep learning, to optimize biliary tract segmentation in the context of ERCP.

Published in	International Journal of Biomedical Engineering and Clinical Science (Volume 9, Issue 4)
DOI	10.11648/j.ijbecs.20230904.11
Page(s)	66-74
Creative Commons	This is an Open Access article, distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution and reproduction in any medium or format, provided the original work is properly cited.
Copyright	Copyright © The Author(s), 2024. Published by Science Publishing Group

Keywords

Segmentation, Biliary Tract, MRI Images, ERCP, U-Net

References

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APA Style

Essamlali, A., Millot-Maysounabe, V., Chartier, M., Salin, G., Becq, A., et al. (2023). Bile Duct Segmentation Methods Under 3D Slicer Applied to ERCP: Advantages and Disadvantages. International Journal of Biomedical Engineering and Clinical Science, 9(4), 66-74. https://doi.org/10.11648/j.ijbecs.20230904.11

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ACS Style

Essamlali, A.; Millot-Maysounabe, V.; Chartier, M.; Salin, G.; Becq, A., et al. Bile Duct Segmentation Methods Under 3D Slicer Applied to ERCP: Advantages and Disadvantages. Int. J. Biomed. Eng. Clin. Sci. 2023, 9(4), 66-74. doi: 10.11648/j.ijbecs.20230904.11

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AMA Style

Essamlali A, Millot-Maysounabe V, Chartier M, Salin G, Becq A, et al. Bile Duct Segmentation Methods Under 3D Slicer Applied to ERCP: Advantages and Disadvantages. Int J Biomed Eng Clin Sci. 2023;9(4):66-74. doi: 10.11648/j.ijbecs.20230904.11

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@article{10.11648/j.ijbecs.20230904.11,
  author = {Abdelhadi Essamlali and Vincent Millot-Maysounabe and Marion Chartier and Grégoire Salin and Aymeric Becq and Lionel Arrivé and Marine Duboc Camus and Jérôme Szewczyk and Isabelle Claude},
  title = {Bile Duct Segmentation Methods Under 3D Slicer Applied to ERCP: Advantages and Disadvantages},
  journal = {International Journal of Biomedical Engineering and Clinical Science},
  volume = {9},
  number = {4},
  pages = {66-74},
  doi = {10.11648/j.ijbecs.20230904.11},
  url = {https://doi.org/10.11648/j.ijbecs.20230904.11},
  eprint = {https://article.sciencepublishinggroup.com/pdf/10.11648.j.ijbecs.20230904.11},
  abstract = {This article presents an evaluation of biliary tract segmentation methods used for 3D reconstruction, which may be very usefull in various critical interventions, such as endoscopic retrograde cholangiopancreatography (ERCP), using the 3D Slicer software. This article provides an assessment of biliary tract segmentation techniques employed for 3D reconstruction, which can prove highly valuable in diverse critical procedures like endoscopic retrograde cholangiopancreatography (ERCP) through the utilization of 3D Slicer software. Three different methods, namely thresholding, flood filling, and region growing, were assessed in terms of their advantages and disadvantages. The study involved 10 patient cases and employed quantitative indices and qualitative evaluation to assess the segmentations obtained by the different segmentation methods against ground truth. The results indicate that the thresholding method is almost manual and time-consuming, while the flood filling method is semi-automatic and also time-consuming. Although both methods improve segmentation quality, they are not reproducible. Therefore, an automatic method based on region growing was developed to reduce segmentation time, albeit at the expense of quality. These findings highlight the pros and cons of different conventional segmentation methods and underscore the need to explore alternative approaches, such as deep learning, to optimize biliary tract segmentation in the context of ERCP.
},
 year = {2023}
}

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TY  - JOUR
T1  - Bile Duct Segmentation Methods Under 3D Slicer Applied to ERCP: Advantages and Disadvantages
AU  - Abdelhadi Essamlali
AU  - Vincent Millot-Maysounabe
AU  - Marion Chartier
AU  - Grégoire Salin
AU  - Aymeric Becq
AU  - Lionel Arrivé
AU  - Marine Duboc Camus
AU  - Jérôme Szewczyk
AU  - Isabelle Claude
Y1  - 2023/11/09
PY  - 2023
N1  - https://doi.org/10.11648/j.ijbecs.20230904.11
DO  - 10.11648/j.ijbecs.20230904.11
T2  - International Journal of Biomedical Engineering and Clinical Science
JF  - International Journal of Biomedical Engineering and Clinical Science
JO  - International Journal of Biomedical Engineering and Clinical Science
SP  - 66
EP  - 74
PB  - Science Publishing Group
SN  - 2472-1301
UR  - https://doi.org/10.11648/j.ijbecs.20230904.11
AB  - This article presents an evaluation of biliary tract segmentation methods used for 3D reconstruction, which may be very usefull in various critical interventions, such as endoscopic retrograde cholangiopancreatography (ERCP), using the 3D Slicer software. This article provides an assessment of biliary tract segmentation techniques employed for 3D reconstruction, which can prove highly valuable in diverse critical procedures like endoscopic retrograde cholangiopancreatography (ERCP) through the utilization of 3D Slicer software. Three different methods, namely thresholding, flood filling, and region growing, were assessed in terms of their advantages and disadvantages. The study involved 10 patient cases and employed quantitative indices and qualitative evaluation to assess the segmentations obtained by the different segmentation methods against ground truth. The results indicate that the thresholding method is almost manual and time-consuming, while the flood filling method is semi-automatic and also time-consuming. Although both methods improve segmentation quality, they are not reproducible. Therefore, an automatic method based on region growing was developed to reduce segmentation time, albeit at the expense of quality. These findings highlight the pros and cons of different conventional segmentation methods and underscore the need to explore alternative approaches, such as deep learning, to optimize biliary tract segmentation in the context of ERCP.

VL  - 9
IS  - 4
ER  -

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Author Information

Abdelhadi Essamlali

Biomechanics and Bioengineering Laboratory, University of Technology of Compiègne, Compiègne, France

Contact Email
Vincent Millot-Maysounabe

Biomechanics and Bioengineering Laboratory, University of Technology of Compiègne, Compiègne, France
Marion Chartier

Digestive Endoscopy Department, Saint-Antoine Hospital, Paris, France
Grégoire Salin

Digestive Endoscopy Department, Saint-Antoine Hospital, Paris, France
Aymeric Becq

Gastroenterology Department, Henri Mondor Hospital, Creteil, France
Lionel Arrivé

Radiology Department, Saint-Antoine Hospital, Paris, France
Marine Duboc Camus

Digestive Endoscopy Department, Saint-Antoine Hospital, Paris, France
Jérôme Szewczyk

Institute of Intelligent Systems and Robotics, Sorbonne University, Paris, France
Isabelle Claude

Biomechanics and Bioengineering Laboratory, University of Technology of Compiègne, Compiègne, France

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Plain Text BibTeX RIS

APA Style

Essamlali, A., Millot-Maysounabe, V., Chartier, M., Salin, G., Becq, A., et al. (2023). Bile Duct Segmentation Methods Under 3D Slicer Applied to ERCP: Advantages and Disadvantages. International Journal of Biomedical Engineering and Clinical Science, 9(4), 66-74. https://doi.org/10.11648/j.ijbecs.20230904.11

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ACS Style

Essamlali, A.; Millot-Maysounabe, V.; Chartier, M.; Salin, G.; Becq, A., et al. Bile Duct Segmentation Methods Under 3D Slicer Applied to ERCP: Advantages and Disadvantages. Int. J. Biomed. Eng. Clin. Sci. 2023, 9(4), 66-74. doi: 10.11648/j.ijbecs.20230904.11

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AMA Style

Essamlali A, Millot-Maysounabe V, Chartier M, Salin G, Becq A, et al. Bile Duct Segmentation Methods Under 3D Slicer Applied to ERCP: Advantages and Disadvantages. Int J Biomed Eng Clin Sci. 2023;9(4):66-74. doi: 10.11648/j.ijbecs.20230904.11

Copy | Download

@article{10.11648/j.ijbecs.20230904.11,
  author = {Abdelhadi Essamlali and Vincent Millot-Maysounabe and Marion Chartier and Grégoire Salin and Aymeric Becq and Lionel Arrivé and Marine Duboc Camus and Jérôme Szewczyk and Isabelle Claude},
  title = {Bile Duct Segmentation Methods Under 3D Slicer Applied to ERCP: Advantages and Disadvantages},
  journal = {International Journal of Biomedical Engineering and Clinical Science},
  volume = {9},
  number = {4},
  pages = {66-74},
  doi = {10.11648/j.ijbecs.20230904.11},
  url = {https://doi.org/10.11648/j.ijbecs.20230904.11},
  eprint = {https://article.sciencepublishinggroup.com/pdf/10.11648.j.ijbecs.20230904.11},
  abstract = {This article presents an evaluation of biliary tract segmentation methods used for 3D reconstruction, which may be very usefull in various critical interventions, such as endoscopic retrograde cholangiopancreatography (ERCP), using the 3D Slicer software. This article provides an assessment of biliary tract segmentation techniques employed for 3D reconstruction, which can prove highly valuable in diverse critical procedures like endoscopic retrograde cholangiopancreatography (ERCP) through the utilization of 3D Slicer software. Three different methods, namely thresholding, flood filling, and region growing, were assessed in terms of their advantages and disadvantages. The study involved 10 patient cases and employed quantitative indices and qualitative evaluation to assess the segmentations obtained by the different segmentation methods against ground truth. The results indicate that the thresholding method is almost manual and time-consuming, while the flood filling method is semi-automatic and also time-consuming. Although both methods improve segmentation quality, they are not reproducible. Therefore, an automatic method based on region growing was developed to reduce segmentation time, albeit at the expense of quality. These findings highlight the pros and cons of different conventional segmentation methods and underscore the need to explore alternative approaches, such as deep learning, to optimize biliary tract segmentation in the context of ERCP.
},
 year = {2023}
}

Copy | Download

TY  - JOUR
T1  - Bile Duct Segmentation Methods Under 3D Slicer Applied to ERCP: Advantages and Disadvantages
AU  - Abdelhadi Essamlali
AU  - Vincent Millot-Maysounabe
AU  - Marion Chartier
AU  - Grégoire Salin
AU  - Aymeric Becq
AU  - Lionel Arrivé
AU  - Marine Duboc Camus
AU  - Jérôme Szewczyk
AU  - Isabelle Claude
Y1  - 2023/11/09
PY  - 2023
N1  - https://doi.org/10.11648/j.ijbecs.20230904.11
DO  - 10.11648/j.ijbecs.20230904.11
T2  - International Journal of Biomedical Engineering and Clinical Science
JF  - International Journal of Biomedical Engineering and Clinical Science
JO  - International Journal of Biomedical Engineering and Clinical Science
SP  - 66
EP  - 74
PB  - Science Publishing Group
SN  - 2472-1301
UR  - https://doi.org/10.11648/j.ijbecs.20230904.11
AB  - This article presents an evaluation of biliary tract segmentation methods used for 3D reconstruction, which may be very usefull in various critical interventions, such as endoscopic retrograde cholangiopancreatography (ERCP), using the 3D Slicer software. This article provides an assessment of biliary tract segmentation techniques employed for 3D reconstruction, which can prove highly valuable in diverse critical procedures like endoscopic retrograde cholangiopancreatography (ERCP) through the utilization of 3D Slicer software. Three different methods, namely thresholding, flood filling, and region growing, were assessed in terms of their advantages and disadvantages. The study involved 10 patient cases and employed quantitative indices and qualitative evaluation to assess the segmentations obtained by the different segmentation methods against ground truth. The results indicate that the thresholding method is almost manual and time-consuming, while the flood filling method is semi-automatic and also time-consuming. Although both methods improve segmentation quality, they are not reproducible. Therefore, an automatic method based on region growing was developed to reduce segmentation time, albeit at the expense of quality. These findings highlight the pros and cons of different conventional segmentation methods and underscore the need to explore alternative approaches, such as deep learning, to optimize biliary tract segmentation in the context of ERCP.

VL  - 9
IS  - 4
ER  -

Copy | Download