DeepLRHE: A Deep Convolutional Neural Network Framework to Evaluate the Risk of Lung Cancer Recurrence and Metastasis From Histopathology Images

Frontiers in Genetics
Zhijun WuYonggang Liu

Abstract

It is critical for patients who cannot undergo eradicable surgery to predict the risk of lung cancer recurrence and metastasis; therefore, the physicians can design the appropriate adjuvant therapy plan. However, traditional circulating tumor cell (CTC) detection or next-generation sequencing (NGS)-based methods are usually expensive and time-inefficient, which urge the need for more efficient computational models. In this study, we have established a convolutional neural network (CNN) framework called DeepLRHE to predict the recurrence risk of lung cancer by analyzing histopathological images of patients. The steps for using DeepLRHE include automatic tumor region identification, image normalization, biomarker identification, and sample classification. In practice, we used 110 lung cancer samples downloaded from The Cancer Genome Atlas (TCGA) database to train and validate our CNN model and 101 samples as independent test dataset. The area under the receiver operating characteristic (ROC) curve (AUC) for test dataset was 0.79, suggesting a relatively good prediction performance. Our study demonstrates that the features extracted from histopathological images could be well used to predict lung cancer recurrence after surgical r...Continue Reading

References

Jul 16, 2002·Nature Medicine·David G BeerSamir Hanash
Aug 30, 2008·British Journal of Cancer·L Makowski, D N Hayes
Jan 22, 2011·Journal of Thoracic Oncology : Official Publication of the International Association for the Study of Lung Cancer·William D TravisDavid Yankelewitz
Feb 19, 2011·Journal of Biomedicine & Biotechnology·Akira Mogi, Hiroyuki Kuwano
Jan 1, 2008·CSH Protocols·Andrew H FischerRolf Zeller
Mar 20, 2012·Cell·Louis M WeinerCasey W Shuptrine
Apr 17, 2013·Journal of Clinical Oncology : Official Journal of the American Society of Clinical Oncology·Laura E MacConaill
Jul 12, 2014·Clinical Cancer Research : an Official Journal of the American Association for Cancer Research·Sébastien CouraudPierre-Jean Souquet
May 11, 2016·IEEE Transactions on Medical Imaging·Abhishek VahadaneNassir Navab
Jul 30, 2016·Journal of Thoracic Oncology : Official Publication of the International Association for the Study of Lung Cancer·Karen L ReckampShirish Gadgeel
Dec 4, 2016·Cancer Research·Sarah ChiangStuart J Schnitt
Mar 17, 2017·Annual Review of Biomedical Engineering·Dinggang ShenHeung-Il Suk
Oct 1, 2018·Journal of Thoracic Oncology : Official Publication of the International Association for the Study of Lung Cancer·Gideon M BlumenthalMark G Kris
Apr 25, 2019·Nature Biomedical Engineering·Ryan PoplinDale R Webster
Jul 7, 2019·BMC Bioinformatics·Nguyen Quoc Khanh LeHui-Yuan Yeh
Oct 9, 2019·Nature Medicine·Francesca ChemiUNKNOWN TRACERx Consortium

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Methods Mentioned

BETA
surgical resection
biopsy
feature extraction

Software Mentioned

TCGA
Tensorflow
learn
scikit
GridSearchCV
OpenCV
Python
OpenSlide
DeepLRHE

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