Breath analysis based early gastric cancer classification from deep stacked sparse autoencoder neural network

Deep learning is an emerging tool, which is regularly used for disease diagnosis in the medical field. A new research direction has been developed for the detection of early-stage gastric cancer. The computer-aided diagnosis (CAD) systems reduce the mortality rate due to their effectiveness. In this study, we proposed a new method for feature extraction using a stacked sparse autoencoder to extract the discriminative features from the unlabeled data of breath samples. A Softmax classifier was then integrated to the proposed method of feature extraction, to classify gastric cancer from the breath samples. Precisely, we identified fifty peaks in each spectrum to distinguish the EGC, AGC, and healthy persons. This CAD system reduces the distance between the input and output by learning the features and preserve the structure of the input data set of breath samples. The features were extracted from the unlabeled data of the breath samples. After the completion of unsupervised training, autoencoders with Softmax classifier were cascaded to develop a deep stacked sparse autoencoder neural network. In last, fine-tuning of the developed neural network was carried out with labeled training data to make the model more reliable and repeatable. The proposed deep stacked sparse autoencoder neural network architecture exhibits excellent results, with an overall accuracy of 98.7% for advanced gastric cancer classification and 97.3% for early gastric cancer detection using breath analysis. Moreover, the developed model produces an excellent result for recall, precision, and f score value, making it suitable for clinical application.

[1]  K. Thangavel,et al.  Breathomics for Gastric Cancer Classification Using Back-propagation Neural Network , 2016, Journal of medical signals and sensors.

[2]  H. Altay Güvenir,et al.  Diagnosis of gastric carcinoma by classification on feature projections , 2004, Artif. Intell. Medicine.

[3]  Kan Wang,et al.  Breath Analysis Based on Surface-Enhanced Raman Scattering Sensors Distinguishes Early and Advanced Gastric Cancer Patients from Healthy Persons. , 2016, ACS nano.

[4]  Yuan Yuan,et al.  Gastric cancer incidence and mortality in Zhuanghe, China, between 2005 and 2010. , 2012, World journal of gastroenterology.

[5]  Geoffrey E. Hinton,et al.  Deep Learning , 2015, Nature.

[6]  Geoffrey E. Hinton,et al.  Reducing the Dimensionality of Data with Neural Networks , 2006, Science.

[7]  Fabio A. González,et al.  A Deep Learning Architecture for Image Representation, Visual Interpretability and Automated Basal-Cell Carcinoma Cancer Detection , 2013, MICCAI.

[8]  S. Koscielny Why Most Gene Expression Signatures of Tumors Have Not Been Useful in the Clinic , 2010, Science Translational Medicine.

[9]  Jianmin Miao,et al.  Nanosensor-Based Flexible Electronic Assisted with Light Fidelity Communicating Technology for Volatolomics-Based Telemedicine. , 2020, ACS nano.

[10]  Dong Yu,et al.  Deep Learning: Methods and Applications , 2014, Found. Trends Signal Process..

[11]  Ulrike Tisch,et al.  The scent fingerprint of hepatocarcinoma: in-vitro metastasis prediction with volatile organic compounds (VOCs) , 2012, International journal of nanomedicine.

[12]  A. Jemal,et al.  Global cancer statistics 2018: GLOBOCAN estimates of incidence and mortality worldwide for 36 cancers in 185 countries , 2018, CA: a cancer journal for clinicians.

[13]  Olaf Hellwich,et al.  Deep convolutional neural networks for automatic classification of gastric carcinoma using whole slide images in digital histopathology , 2017, Comput. Medical Imaging Graph..

[14]  Tomoharu Kiyuna,et al.  Pathological Diagnosis of Gastric Cancers with a Novel Computerized Analysis System , 2017, Journal of pathology informatics.

[15]  LinLin Shen,et al.  Deep learning based gastric cancer identification , 2018, 2018 IEEE 15th International Symposium on Biomedical Imaging (ISBI 2018).

[16]  Jason Weston,et al.  Gene Selection for Cancer Classification using Support Vector Machines , 2002, Machine Learning.

[17]  K. Zen,et al.  Circulating MicroRNAs: a novel class of biomarkers to diagnose and monitor human cancers , 2012, Medicinal research reviews.

[18]  B. Burwinkel,et al.  Cancer diagnosis and prognosis decoded by blood-based circulating microRNA signatures , 2013, Front. Genet..

[19]  H. Haick,et al.  Detection of lung, breast, colorectal, and prostate cancers from exhaled breath using a single array of nanosensors , 2010, British Journal of Cancer.

[20]  Abeer Alsadoon,et al.  Early detection of lung cancer using SVM classifier in biomedical image processing , 2017, 2017 IEEE International Conference on Power, Control, Signals and Instrumentation Engineering (ICPCSI).

[21]  G. Aliev,et al.  A proteomics based approach for the identification of gastric cancer related markers. , 2016, Current pharmaceutical design.

[22]  Daxiang Cui,et al.  Salivary Analysis Based on Surface Enhanced Raman Scattering Sensors Distinguishes Early and Advanced Gastric Cancer Patients from Healthy Persons. , 2018, Journal of biomedical nanotechnology.

[23]  Ki-Hyun Kim,et al.  A review of breath analysis for diagnosis of human health , 2012 .

[24]  Lei Zhang,et al.  Deep Manifold Preserving Autoencoder for Classifying Breast Cancer Histopathological Images , 2020, IEEE/ACM Transactions on Computational Biology and Bioinformatics.

[25]  Hossam Haick,et al.  Volatile organic compounds of lung cancer and possible biochemical pathways. , 2012, Chemical reviews.

[26]  K. Yamashita,et al.  Phosphatase of regenerating liver-3 as a prognostic biomarker in histologically node-negative gastric cancer. , 2009, Oncology reports.

[27]  Sercan Aksoy,et al.  Targeted therapies in gastric cancer and future perspectives. , 2016, World journal of gastroenterology.

[28]  H. Haick,et al.  A nanomaterial-based breath test for distinguishing gastric cancer from benign gastric conditions , 2013, British Journal of Cancer.

[29]  U. Pastorino,et al.  Assessment of Circulating microRNAs in Plasma of Lung Cancer Patients , 2014, Molecules.

[30]  Li Deng,et al.  Three Classes of Deep Learning Architectures and Their Applications: A Tutorial Survey , 2012 .

[31]  C. V. D. van de Velde,et al.  Gastric cancer: epidemiology, pathology and treatment. , 2003, Annals of oncology : official journal of the European Society for Medical Oncology.

[32]  R. A. Leibler,et al.  On Information and Sufficiency , 1951 .

[33]  David S. Wishart,et al.  Applications of Machine Learning in Cancer Prediction and Prognosis , 2006, Cancer informatics.

[34]  Stefan Michiels,et al.  Prediction of cancer outcome with microarrays: a multiple random validation strategy , 2005, The Lancet.

[35]  H. Haick,et al.  Sensors for breath testing: from nanomaterials to comprehensive disease detection. , 2014, Accounts of chemical research.

[36]  Mohamad Amin Pourhoseingholi,et al.  Burden of gastrointestinal cancer in Asia; an overview , 2015, Gastroenterology and hepatology from bed to bench.

[37]  H. Heneghan,et al.  MiRNAs as biomarkers and therapeutic targets in cancer. , 2010, Current opinion in pharmacology.

[38]  Anant Madabhushi,et al.  A Deep Convolutional Neural Network for segmenting and classifying epithelial and stromal regions in histopathological images , 2016, Neurocomputing.

[39]  Hui Zhang,et al.  Transabdominal ultrasonography in preoperative staging of gastric cancer. , 2004, World journal of gastroenterology.

[40]  Marc'Aurelio Ranzato,et al.  Efficient Learning of Sparse Representations with an Energy-Based Model , 2006, NIPS.

[41]  Dayong Wang,et al.  Deep Learning for Identifying Metastatic Breast Cancer , 2016, ArXiv.

[42]  Jianzhong Wu,et al.  Stacked Sparse Autoencoder (SSAE) for Nuclei Detection on Breast Cancer Histopathology Images , 2016, IEEE Transactions on Medical Imaging.

[43]  A. Axon,et al.  Symptoms and diagnosis of gastric cancer at early curable stage. , 2006, Best practice & research. Clinical gastroenterology.