Skip to main content

CovidDiagnosis: Deep Diagnosis of COVID-19 Patients Using Chest X-Rays

  • Conference paper
  • First Online:
Thoracic Image Analysis (TIA 2020)

Abstract

As the COVID-19 pandemic threatens to overwhelm healthcare systems across the world, there is a need for reducing the burden on medical staff via automated systems for patient screening. Given the limited availability of testing kits with long turn-around test times and the exponentially increasing number of COVID-19 positive cases, X-rays offer an additional cheap and fast modality for screening COVID-19 positive patients, especially for patients exhibiting respiratory symptoms. In this paper, we propose a solution based on a combination of deep learning and radiomic features for assisting radiologists during the diagnosis of COVID-19. The proposed system of CovidDiagnosis takes a chest X-ray image and passes it through a pipeline comprising of a model for lung isolation, followed by classification of the lung regions into four disease classes, namely Healthy, Pneumonia, Tuberculosis and COVID-19. To assist our classification framework, we employ embeddings of disease symptoms produced by the CheXNet network by creating an ensemble. The proposed approach gives remarkable classification results on publicly available datasets of chest X-rays. Additionally, the system produces visualization maps which highlight the symptoms responsible for producing the classification decisions. This provides trustworthy and interpretable decisions to radiologists for the clinical deployment of CovidDiagnosis. Further, we calibrate our network using temperature scaling to give confidence scores which are representative of true correctness likelihood.

This is a preview of subscription content, log in via an institution to check access.

Access this chapter

Subscribe and save

Springer+ Basic
$34.99 /Month
  • Get 10 units per month
  • Download Article/Chapter or eBook
  • 1 Unit = 1 Article or 1 Chapter
  • Cancel anytime
Subscribe now

Buy Now

Chapter
USD 29.95
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever

Tax calculation will be finalised at checkout

Purchases are for personal use only

Institutional subscriptions

Similar content being viewed by others

Notes

  1. 1.

    Lungs-Finder: https://github.com/xiaoyongzhu/lungs-finder.

References

  1. Alom, M.Z., Yakopcic, C., Taha, T.M., Asari, V.K.: Nuclei segmentation with recurrent residual convolutional neural networks based u-net (r2u-net). In: NAECON 2018 - IEEE National Aerospace and Electronics Conference, pp. 228–233, July 2018. https://doi.org/10.1109/NAECON.2018.8556686

  2. Asnaoui, K.E., Chawki, Y.: Using x-ray images and deep learning for automated detection of coronavirus disease. J. Biomolecular Structure Dyn. 1–12 (2020). https://doi.org/10.1080/07391102.2020.1767212

  3. Basu, S., Mitra, S., Saha, N.: Deep learning for screening covid-19 using chest x-ray images. arXiv (2020), https://arxiv.org/abs/2004.10507

  4. Bernheim, A., et al.: Chest ct findings in coronavirus disease-19 (covid-19): relationship to duration of infection. Radiology (2020). https://pubs.rsna.org/doi/10.1148/radiol.2020200463

  5. Chen, S., Ma, K., Zheng, Y.: Med3d: Transfer learning for 3d medical image analysis. ArXiv abs/1904.00625 (2019)

    Google Scholar 

  6. Cohen, J.P., Morrison, P., Dao, L., Roth, K., Duong, T.Q., Ghassemi, M.: Covid-19 image data collection: Prospective predictions are the future. arXiv 2006.11988 (2020). https://github.com/ieee8023/covid-chestxray-dataset

  7. Emery, S.L., et al.: Real-time reverse transcription-polymerase chain reaction assay for sars-associated coronavirus. Emerging Infectious Diseases (2004). https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3322901/

  8. Gozes, O., et al.: Rapid AI development cycle for the coronavirus (covid-19) pandemic: initial results for automated detection & patient monitoring using deep learning ct image analysis (2020)

    Google Scholar 

  9. Guo, C., Pleiss, G., Sun, Y., Weinberger, K.Q.: On calibration of modern neural networks. In: Proceedings of the 34th International Conference on Machine Learning, vol. 70. pp. 1321–1330. ICML 2017, JMLR.org (2017)

    Google Scholar 

  10. Huang, G., Liu, Z., Van Der Maaten, L., Weinberger, K.Q.: Densely connected convolutional networks. In: 2017 IEEE Conference on Computer Vision and Pattern Recognition (CVPR), pp. 2261–2269 (2017)

    Google Scholar 

  11. Irvin, J., et al.: Chexpert: a large chest radiograph dataset with uncertainty labels and expert comparison. CoRR abs/1901.07031 (2019). http://arxiv.org/abs/1901.07031

  12. Jaeger, S., Candemir, S., Antani, S., Wáng, Y.X.J., Lu, P.X., Thoma, G.: Two public chest x-ray datasets for computer-aided screening of pulmonary diseases. Quantitative Imag. Med. Surgery 4(6), 475 (2014)

    Google Scholar 

  13. Kong, W., Agarwal, P.P.: Chest imaging appearance of covid-19 infection. Radiology (2020). https://pubs.rsna.org/doi/10.1148/ryct.2020200028

  14. Kumar, P., Grewal, M., Srivastava, M.M.: Boosted cascaded convnets for multilabel classification of thoracic diseases in chest radiographs. In: Campilho, A., Karray, F., ter Haar Romeny, B. (eds.) Image Analysis and Recognition, pp. 546–552. Springer, Cham (2018)

    Chapter  Google Scholar 

  15. Lan, L., Xu, D., Ye, G., Xia, C., Wang, S., Li, Y., Xu, H.: Positive RT-PCR test results in patients recovered from COVID-19. JAMA 323(15), 1502–1503 (2020). https://doi.org/10.1001/jama.2020.2783

  16. Lee, E.Y.P., Ng, M.Y., Khong, P.L.: COVID-19 pneumonia: what has CT taught us? The Lancet Infectious Diseases 20(4), 384–385 (2020). http://www.sciencedirect.com/science/article/pii/S1473309920301341

  17. Long, C., et al.: Diagnosis of the coronavirus disease (covid-19): RRT-PCR or CT? Euro. J. Radiol. 126, 108961 (2020). http://www.sciencedirect.com/science/article/pii/S0720048X20301509

  18. Mangal, A., Kalia, S., Rajgopal, H., Rangarajan, K., Namboodiri, V., Banerjee, S., Arora, C.: Covidaid: COVID-19 detection using chest x-ray (2020)

    Google Scholar 

  19. Oktay, O., et al.: Attention u-net: learning where to look for the pancreas. CoRR abs/1804.03999 (2018). http://arxiv.org/abs/1804.03999

  20. Eng Pan, Ye, T., et al.: Time course of lung changes at chest ct during recovery from coronavirus disease 2019 (COVID-19). Radiology (2020). https://doi.org/10.1148/radiol.2020200370

  21. Rajpurkar, P., et al.: Chexnet: Radiologist-level pneumonia detection on chest x-rays with deep learning. CoRR abs/1711.05225 (2017). http://arxiv.org/abs/1711.05225

  22. Ren, S., He, K., Girshick, R., Sun, J.: Faster R-CNN: towards real-time object detection with region proposal networks. IEEE Trans. Pattern Anal. Mach. Intell. 39(6), 1137–1149 (2017). https://doi.org/10.1109/TPAMI.2016.2577031

  23. Selvaraju, R.R., Cogswell, M., Das, A., Vedantam, R., Parikh, D., Batra, D.: Grad-cam: visual explanations from deep networks via gradient-based localization. In: 2017 IEEE International Conference on Computer Vision (ICCV), pp. 618–626 (2017)

    Google Scholar 

  24. Ozturk, T., et al.: Automated detection of COVID-19 cases using deep neural networks with x-ray images. Comput. Biol. Med. (2020). https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7187882/

  25. Tang, Y., Tang, Y., Xiao, J., Summers, R.M.: Xlsor: A robust and accurate lung segmentor on chest x-rays using criss-cross attention and customized radiorealistic abnormalities generation. In: MIDL (2019)

    Google Scholar 

  26. Toğaçar, M., Ergen, B., Cömert, Z.: Covid-19 detection using deep learning models to exploit social mimic optimization and structured chest x-ray images using fuzzy color and stacking approaches. Comput. Biol. Med. 121, 103805 (2020). http://www.sciencedirect.com/science/article/pii/S0010482520301736

  27. Wang, L., Wong, A.: Covid-net: A tailored deep convolutional neural network design for detection of covid-19 cases from chest x-ray images (2020)

    Google Scholar 

  28. Wang, X., Peng, Y., Lu, L., Lu, Z., Bagheri, M., Summers, R.M.: Chestx-ray8: hospital-scale chest x-ray database and benchmarks on weakly-supervised classification and localization of common thorax diseases. In: Proceedings of the IEEE Conference on Computer Vision and Pattern Recognition, pp. 2097–2106 (2017)

    Google Scholar 

  29. Xie, X., Zhong, Z., Zhao, W., Zheng, C., Wang, F., Liu, J.: Chest ct for typical 2019-ncov pneumonia: relationship to negative rt-pcr testing. Radiology (2020). https://pubs.rsna.org/doi/10.1148/radiol.2020200343

  30. Yi, X., Walia, E., Babyn, P.: Generative adversarial network in medical imaging: a review. Med. Image Anal. 58, 101552 (2019). http://www.sciencedirect.com/science/article/pii/S1361841518308430

  31. Zu, Z.Y., Jiang, M.D., Xu, P.P., Chen, W., Ni, Q.Q., Lu, G.M., Zhang, L.J.: Coronavirus disease 2019 (covid-19): a perspective from china. Radiology (2020). https://pubs.rsna.org/doi/10.1148/radiol.2020200490

Download references

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to Kushagra Mahajan .

Editor information

Editors and Affiliations

Rights and permissions

Reprints and permissions

Copyright information

© 2020 Springer Nature Switzerland AG

About this paper

Check for updates. Verify currency and authenticity via CrossMark

Cite this paper

Mahajan, K. et al. (2020). CovidDiagnosis: Deep Diagnosis of COVID-19 Patients Using Chest X-Rays. In: Petersen, J., et al. Thoracic Image Analysis. TIA 2020. Lecture Notes in Computer Science(), vol 12502. Springer, Cham. https://doi.org/10.1007/978-3-030-62469-9_6

Download citation

  • DOI: https://doi.org/10.1007/978-3-030-62469-9_6

  • Published:

  • Publisher Name: Springer, Cham

  • Print ISBN: 978-3-030-62468-2

  • Online ISBN: 978-3-030-62469-9

  • eBook Packages: Computer ScienceComputer Science (R0)

Publish with us

Policies and ethics

pFad - Phonifier reborn

Pfad - The Proxy pFad of © 2024 Garber Painting. All rights reserved.

Note: This service is not intended for secure transactions such as banking, social media, email, or purchasing. Use at your own risk. We assume no liability whatsoever for broken pages.


Alternative Proxies:

Alternative Proxy

pFad Proxy

pFad v3 Proxy

pFad v4 Proxy