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Scientific article
Open access
English

COLI-Net: Deep learning-assisted fully automated COVID-19 lung and infection pneumonia lesion detection and segmentation from chest computed tomography images

Published inInternational journal of imaging systems and technology, vol. 32, no. 1, p. 12-25
Publication date2022
First online date2021-10-28
Abstract

We present a deep learning (DL)-based automated whole lung and COVID-19 pneumonia infectious lesions (COLI-Net) detection and segmentation from chest computed tomography (CT) images. This multicenter/multiscanner study involved 2368 (347′259 2D slices) and 190 (17 341 2D slices) volumetric CT exams along with their corresponding manual segmentation of lungs and lesions, respectively. All images were cropped, resized, and the intensity values clipped and normalized. A residual network with non-square Dice loss function built upon TensorFlow was employed. The accuracy of lung and COVID-19 lesions segmentation was evaluated on an external reverse transcription-polymerase chain reaction positive COVID-19 dataset (7′333 2D slices) collected at five different centers. To evaluate the segmentation performance, we calculated different quantitative metrics, including radiomic features. The mean Dice coefficients were 0.98 ± 0.011 (95% CI, 0.98–0.99) and 0.91 ± 0.038 (95% CI, 0.90–0.91) for lung and lesions segmentation, respectively. The mean relative Hounsfield unit differences were 0.03 ± 0.84% (95% CI, −0.12 to 0.18) and −0.18 ± 3.4% (95% CI, −0.8 to 0.44) for the lung and lesions, respectively. The relative volume difference for lung and lesions were 0.38 ± 1.2% (95% CI, 0.16–0.59) and 0.81 ± 6.6% (95% CI, −0.39 to 2), respectively. Most radiomic features had a mean relative error less than 5% with the highest mean relative error achieved for the lung for the range first-order feature (−6.95%) and least axis length shape feature (8.68%) for lesions. We developed an automated DL-guided three-dimensional whole lung and infected regions segmentation in COVID-19 patients to provide fast, consistent, robust, and human error immune framework for lung and pneumonia lesion detection and quantification.

eng
Keywords
  • COVID-19
  • Deep learning
  • Pneumonia
  • Segmentation
  • X-ray CT
Citation (ISO format)
SHIRI LORD, Isaac et al. COLI-Net: Deep learning-assisted fully automated COVID-19 lung and infection pneumonia lesion detection and segmentation from chest computed tomography images. In: International journal of imaging systems and technology, 2022, vol. 32, n° 1, p. 12–25. doi: 10.1002/ima.22672
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Identifiers
ISSN of the journal0899-9457
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Technical informations

Creation10/28/2021 4:26:00 PM
First validation10/28/2021 4:26:00 PM
Update time05/10/2023 9:12:57 AM
Status update05/10/2023 9:12:57 AM
Last indexation02/12/2024 1:31:52 PM
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