Research Article


DOI :10.26650/acin.880918   IUP :10.26650/acin.880918    Full Text (PDF)

Performance Comparison of Different Pre-Trained Deep Learning Models in Classifying Brain MRI Images

Onur Sevli

A brain tumor is a collection of abnormal cells formed as a result of uncontrolled cell division. If tumors are not diagnosed in a timely and accurate manner, they can cause fatal consequences. One of the commonly used techniques to detect brain tumors is magnetic resonance imaging (MRI). MRI provides easy detection of abnormalities in the brain with its high resolution. MR images have traditionally been studied and interpreted by radiologists. However, with the development of technology, it becomes more difficult to interpret large amounts of data produced in reasonable periods. Therefore, the development of computerized semi-automatic or automatic methods has become an important research topic. Machine learning methods that can predict by learning from data are widely used in this field. However, the extraction of image features requires special engineering in the machine learning process. Deep learning, a sub-branch of machine learning, allows us to automatically discover the complex hierarchy in the data and eliminates the limitations of machine learning. Transfer learning is to transfer the knowledge of a pre-trained neural network to a similar model in case of limited training data or the goal of reducing the workload. In this study, the performance of the pre-trained Vgg-16, ResNet50, Inception v3 models in classifying 253 brain MR images were evaluated. The Vgg-16 model showed the highest success with 94.42% accuracy, 83.86% recall, 100% precision and 91.22% F1 score. This was followed by the ResNet50 model with an accuracy of 82.49%.The findings obtained in this study were compared with similar studies in the literature and it was found that it showed higher success than most studies.

DOI :10.26650/acin.880918   IUP :10.26650/acin.880918    Full Text (PDF)

Beyin MR Görüntülerini Sınıflandırmada Farklı Önceden Eğitilmiş Derin Öğrenme Modellerinin Performans Karşılaştırması

Onur Sevli

Beyin tümörleri, beyin hücrelerinin kontrolsüz bölünmeleri sonucu meydana gelen kitlelerdir. Tümörler zamanında ve doğru teşhis edilmezlerse ölümcül sonuçlara neden olabilir. Beyin tümörlerini tespit etmede yaygın olarak kullanılan tekniklerden biri olan MRI’dir. MRI, sağladığı yüksek çözünürlük ile beyindeki anormalliklerin kolay tespitine imkân verir. MR görüntüleri geleneksel olarak radyologlar tarafından incelenip yorumlanır. Ancak teknolojinin gelişmesi ile birlikte üretilen çok miktarda veriyi makul sürelerde yorumlamak daha zor hale gelmektedir. Bu nedenle bilgisayarlı yarı otomatik ya da otomatik yöntemlerin geliştirilmesi önemli bir araştırma konusu haline gelmiştir. Verilerden öğrenerek tahmin yapabilen makine öğrenmesi yöntemleri bu alanda yaygın olarak kullanılmaktadır. Ancak makine öğrenmesi için görüntü özelliklerinin çıkarımı özel bir mühendislik gerektirir. Makine öğrenmesinin bir alt dalı olan derin öğrenme, veri içerisindeki karmaşık hiyerarşiyi otomatik olarak keşfetmeye imkân sağlar ve makine öğrenmesinin sınırlılıklarını ortadan kaldırır. Transfer öğrenme ise eldeki eğitim verisinin az olması halinde ya da iş yükünü azaltmak için daha önceden eğitilmiş bir derin sinir ağının bilgilerinin benzer başka bir modele aktarılmasıdır. Bu çalışmada önceden eğitilmiş Vgg-16, ResNet50 ve Inception v3 modellerinin sınıflamadaki performansları değerlendirilmiştir. Vgg-16 modeli %94.42 doğruluk, %83.86 recall, %100 precision ve %91.22 F1 skoru ile en yüksek başarıyı göstermiştir. Bunu %82.49 doğrulukla ResNet50 modeli izlemektedir. Bu çalışmada elde edilen bulgular literatürdeki benzer çalışmalarla karşılaştırılmış ve çoğu çalışmadan daha yüksek başarı gösterdiği görülmüştür. 


PDF View

References

  • Abiwinanda, Nyoman, Muhammad Hanif, S. Tafwida Hesaputra, Astri Handayani, and Tati Rajab Mengko. 2019. “Brain Tumor Classification Using Convolutional Neural Network.” Pp. 183-89 in World congress on medical physics and biomedical engineering 2018. Springer. google scholar
  • Afshar, Parnian, Arash Mohammadi, and Konstantinos N. Plataniotis. 2018. “Brain Tumor Type Classification via Capsule Networks.” Pp. 3129-3133 in 2018 25th IEEE International Conference on Image Processing (ICIP). IEEE. google scholar
  • Agn, Mikael, Per Munck af Rosenschöld, Oula Puonti, Michael J. Lundemann, Laura Mancini, Anastasia Papadaki, Steffi Thust, John Ashburner, Ian Law, and Koen Van Leemput. 2019. “A Modality-Adaptive Method for Segmenting Brain Tumors and Organs-at-Risk in Radiation Therapy Planning.” Medical Image Analysis 54:220-237. google scholar
  • Agravat, Rupal R., and Mehul S. Raval. 2018. “Deep Learning for Automated Brain Tumor Segmentation in MRI Images.” Pp. 183-201 in Soft Computing Based Medical Image Analysis, edited by N. Dey, A. S. Ashour, F. Shi, and V. E. Balas. Academic Press. google scholar
  • Akkus, Zeynettin, Alfiia Galimzianova, Assaf Hoogi, Daniel L. Rubin, and Bradley J. Erickson. 2017. “Deep Learning for Brain MRI Segmentation: State of the Art and Future Directions.” Journal of Digital Imaging 30(4):449-59. google scholar
  • Bauer, Stefan, Roland Wiest, Lutz-P. Nolte, and Mauricio Reyes. 2013. “A Survey of MRI-Based Medical Image Analysis for Brain Tumor Studies.” Physics in Medicine & Biology 58(13):R97. google scholar
  • Belaid, Ouiza Nait, and Malik Loudini. 2020. “Classification of Brain Tumor by Combination of Pre-Trained VGG16 CNN.” Journal of Information Technology Management 12(2):13-25. google scholar
  • Cancer.Net, “Brain Tumor - Statistics.” Retrieved October 28, 2020 (https://www.cancer.net/cancer-types/brain-tumor/statistics). google scholar
  • Cao, Chensi, Feng Liu, Hai Tan, Deshou Song, Wenjie Shu, Weizhong Li, Yiming Zhou, Xiaochen Bo, and Zhi Xie. 2018. “Deep Learning and Its Applications in Biomedicine.” Genomics, Proteomics & Bioinformatics 16(1):17-32. google scholar
  • Chakrabarty, N. n.d. “Brain MRI Images for Brain Tumor Detection.” Kaggle. Retrieved May 28, 2020 (https://kaggle.com/navoneel/ brain-mri-images-for-brain-tumor-detection). google scholar
  • Chaplot, Sandeep, Lalit M. Patnaik, and N. R. Jagannathan. 2006. “Classification of Magnetic Resonance Brain Images Using Wavelets as Input to Support Vector Machine and Neural Network.” Biomedical Signal Processing and Control 1(1):86-92. google scholar
  • Charron, Odelin, Alex Lallement, Delphine Jarnet, Vincent Noblet, Jean-Baptiste Clavier, and Philippe Meyer. 2018. “Automatic Detection and Segmentation of Brain Metastases on Multimodal MR Images with a Deep Convolutional Neural Network.” Computers in Biology and Medicine 95:43-54. google scholar
  • Chelghoum, Rayene, Ameur Ikhlef, Amina Hameurlaine, and Sabir Jacquir. 2020. “Transfer Learning Using Convolutional Neural Network Architectures for Brain Tumor Classification from MRI Images.” Pp. 189-200 in Artificial Intelligence Applications and Innovations, edited by I. Maglogiannis, L. Iliadis, and E. Pimenidis. Cham: Springer International Publishing. google scholar
  • Cheng, Jie-Zhi, Dong Ni, Yi-Hong Chou, Jing Qin, Chui-Mei Tiu, Yeun-Chung Chang, Chiun-Sheng Huang, Dinggang Shen, and Chung-Ming Chen. 2016. “Computer-Aided Diagnosis with Deep Learning Architecture: Applications to Breast Lesions in US Images and Pulmonary Nodules in CT Scans.” Scientific Reports 6(1):1-13. google scholar
  • Deepak, S., and P. M. Ameer. 2019. “Brain Tumor Classification Using Deep CNN Features via Transfer Learning.” Computers in Biology and Medicine 111:103345. doi: 10.1016/j.compbiomed.2019.103345. google scholar
  • Deepak, S., and P. M. Ameer. 2020. “Automated Categorization of Brain Tumor from MRI Using CNN Features and SVM.” Journal of Ambient Intelligence and Humanized Computing. doi: 10.1007/s12652-020-02568-w. google scholar
  • Deniz, Erkan, Abdulkadir Şengür, Zehra Kadiroğlu, Yanhui Guo, Varun Bajaj, and Ümit Budak. 2018. “Transfer Learning Based Histopathologic Image Classification for Breast Cancer Detection.” Health Information Science and Systems 6(1):18. google scholar
  • Domingues, Remi, Maurizio Filippone, Pietro Michiardi, and Jihane Zouaoui. 2018. “A Comparative Evaluation of Outlier Detection Algorithms: Experiments and Analyses.” Pattern Recognition 74:406-21. google scholar
  • El-Dahshan, El-Sayed Ahmed, Tamer Hosny, and Abdel-Badeeh M. Salem. 2010. “Hybrid Intelligent Techniques for MRI Brain Images Classification.” Digital Signal Processing 20(2):433-41. google scholar
  • Gu, Yu, Xiaoqi Lu, Lidong Yang, Baohua Zhang, Dahua Yu, Ying Zhao, Lixin Gao, Liang Wu, and Tao Zhou. 2018. “Automatic Lung Nodule Detection Using a 3D Deep Convolutional Neural Network Combined with a Multi-Scale Prediction Strategy in Chest CTs.” Computers in Biology and Medicine 103:220-231. google scholar
  • Havaei, Mohammad, Axel Davy, David Warde-Farley, Antoine Biard, Aaron Courville, Yoshua Bengio, Chris Pal, Pierre-Marc Jodoin, and Hugo Larochelle. 2017. “Brain Tumor Segmentation with Deep Neural Networks.” Medical Image Analysis 35:18-31. google scholar
  • He, K., X. Zhang, S. Ren, and J. Sun. 2016. “Deep Residual Learning for Image Recognition.” Pp. 770-78 in 2016 IEEE Conference on Computer Vision and Pattern Recognition (CVPR). google scholar
  • Hussein, Sarfaraz, Pujan Kandel, Candice W. Bolan, Michael B. Wallace, and Ulas Bagci. 2019. “Lung and Pancreatic Tumor Characterization in the Deep Learning Era: Novel Supervised and Unsupervised Learning Approaches.” IEEE Transactions on Medical Imaging 38(8):1777-1787. google scholar
  • Jain, Rachna, Nikita Jain, Akshay Aggarwal, and D. Jude Hemanth. 2019. “Convolutional Neural Network Based Alzheimer’s Disease Classification from Magnetic Resonance Brain Images.” Cognitive Systems Research 57:147-59. doi: 10.1016/j.cogsys.2018.12.015. google scholar
  • Kamnitsas, Konstantinos, Christian Ledig, Virginia FJ Newcombe, Joanna P. Simpson, Andrew D. Kane, David K. Menon, Daniel Rueckert, and Ben Glocker. 2017. “Efficient Multi-Scale 3D CNN with Fully Connected CRF for Accurate Brain Lesion Segmentation.” Medical Image Analysis 36:61-78. google scholar
  • Kaur, Taranjit, and Tapan Kumar Gandhi. 2020. “Deep Convolutional Neural Networks with Transfer Learning for Automated Brain Image Classification.” Machine Vision and Applications 31:1-16. google scholar
  • Kleesiek, Jens, Armin Biller, Gregor Urban, U. Kothe, Martin Bendszus, and F. Hamprecht. 2014. “Ilastik for Multi-Modal Brain Tumor Segmentation.” Proceedings MICCAI BraTS (Brain Tumor Segmentation Challenge) 12-17. google scholar
  • Kumar, Sanjeev, Chetna Dabas, and Sunila Godara. 2017. “Classification of Brain MRI Tumor Images: A Hybrid Approach.” Procedia Computer Science 122:510-17. google scholar
  • LeCun, Yann, Yoshua Bengio, and Geoffrey Hinton. 2015. “Deep Learning.” Nature 521(7553):436-444. google scholar
  • Litjens, Geert, Clara I. Sânchez, Nadya Timofeeva, Meyke Hermsen, Iris Nagtegaal, Iringo Kovacs, Christina Hulsbergen-Van De Kaa, Peter Bult, Bram Van Ginneken, and Jeroen Van Der Laak. 2016. “Deep Learning as a Tool for Increased Accuracy and Efficiency of Histopathological Diagnosis.” Scientific Reports 6:26286. google scholar
  • Menze, Bjoern H., Andras Jakab, Stefan Bauer, Jayashree Kalpathy-Cramer, Keyvan Farahani, Justin Kirby, Yuliya Burren, Nicole Porz, Johannes Slotboom, and Roland Wiest. 2014. “The Multimodal Brain Tumor Image Segmentation Benchmark (BRATS).” IEEE Transactions on Medical Imaging 34(10):1993-2024. google scholar
  • Mlynarski, Pawel, Herve Delingette, Antonio Criminisi, and Nicholas Ayache. 2019. “Deep Learning with Mixed Supervision for Brain Tumor Segmentation.” Journal of Medical Imaging 6(3):034002. google scholar
  • Mohsen, Heba, El-Sayed A. El-Dahshan, El-Sayed M. El-Horbaty, and Abdel-Badeeh M. Salem. 2018. “Classification Using Deep Learning Neural Networks for Brain Tumors.” Future Computing and Informatics Journal 3(1):68-71. google scholar
  • Moritz, Chad H., Victor M. Haughton, Dietmar Cordes, Michelle Quigley, and M. Elizabeth Meyerand. 2000. “Whole-Brain Functional MR Imaging Activation from a Finger-Tapping Task Examined with Independent Component Analysis.” American Journal of Neuroradiology 21(9):1629-35. google scholar
  • Naser, Mohamed A., and M. Jamal Deen. 2020. “Brain Tumor Segmentation and Grading of Lower-Grade Glioma Using Deep Learning in MRI Images.” Computers in Biology and Medicine 121:103758. google scholar
  • Nayak, Deepak Ranjan, Ratnakar Dash, and Banshidhar Majhi. 2016. “Brain MR Image Classification Using Two-Dimensional Discrete Wavelet Transform and AdaBoost with Random Forests.” Neurocomputing 177:188-97. google scholar
  • Pashaei, Ali, Hedieh Sajedi, and Niloofar Jazayeri. 2018. “Brain Tumor Classification via Convolutional Neural Network and Extreme Learning Machines.” Pp. 314-319 in 2018 8th International conference on computer and knowledge engineering (ICCKE). IEEE. google scholar
  • Prastawa, Marcel, Elizabeth Bullitt, Sean Ho, and Guido Gerig. 2004. “A Brain Tumor Segmentation Framework Based on Outlier Detection.” Medical Image Analysis 8(3):275-83. google scholar
  • Rajinikanth, V., Suresh Chandra Satapathy, Steven Lawrence Fernandes, and S. Nachiappan. 2017. “Entropy Based Segmentation of Tumor from Brain MR Images-a Study with Teaching Learning Based Optimization.” Pattern Recognition Letters 94:87-95. google scholar
  • Ranjan Nayak, Deepak, Ratnakar Dash, and Banshidhar Majhi. 2017. “Stationary Wavelet Transform and Adaboost with SVM Based Pathological Brain Detection in MRI Scanning.” CNS & Neurological Disorders-Drug Targets (Formerly Current Drug Targets-CNS & Neurological Disorders) 16(2):137-49. google scholar
  • Rehman, Arshia, Saeeda Naz, Muhammad Imran Razzak, Faiza Akram, and Muhammad Imran. 2020. “A Deep Learning-Based Framework for Automatic Brain Tumors Classification Using Transfer Learning.” Circuits, Systems, and Signal Processing 39(2):757-75. doi: 10.1007/s00034-019-01246-3. google scholar
  • Reza, S., and K. M. Iftekharuddin. 2014. “Improved Brain Tumor Tissue Segmentation Using Texture Features.” Proceedings MICCAI BraTS (Brain Tumor Segmentation Challenge) 27-30. google scholar
  • Saritha, M., K. Paul Joseph, and Abraham T. Mathew. 2013. “Classification of MRI Brain Images Using Combined Wavelet Entropy Based Spider Web Plots and Probabilistic Neural Network.” Pattern Recognition Letters 34(16):2151-2156. google scholar
  • Saxena, Priyansh, Akshat Maheshwari, and Saumil Maheshwari. 2020. “Predictive Modeling of Brain Tumor: A Deep Learning Approach.” Pp. 275-85 in Innovations in Computational Intelligence and Computer Vision. Springer. google scholar
  • Shahamat, Hossein, and Mohammad Saniee Abadeh. 2020. “Brain MRI Analysis Using a Deep Learning Based Evolutionary Approach.” Neural Networks 126:218-34. google scholar
  • Simonyan, K., and A. Zisserman. 2020. “Very Deep Convolutional Networks for Large-Scale Image Recognition. ArXiv 1409.1556 (09 2014).” URL Https://Arxiv. Org/Abs/1409.1556. Accessed: February. google scholar
  • Szegedy, Christian, Vincent Vanhoucke, Sergey Ioffe, Jon Shlens, and Zbigniew Wojna. 2016. “Rethinking the Inception Architecture for Computer Vision.” Pp. 2818-2826 in Proceedings of the IEEE conference on computer vision and pattern recognition. google scholar
  • Tustison, Nick, Max Wintermark, Chris Durst, and Brian Avants. 2013. “Ants and Arboles.” Multimodal Brain Tumor Segmentation 47. google scholar
  • Wang, Shuihua, Yudong Zhang, Zhengchao Dong, Sidan Du, Genlin Ji, Jie Yan, Jiquan Yang, Qiong Wang, Chunmei Feng, and Preetha Phillips. 2015. “Feed-Forward Neural Network Optimized by Hybridization of PSO and ABC for Abnormal Brain Detection.” International Journal of Imaging Systems and Technology 25(2):153-164. google scholar
  • Yang, Yang, Lin-Feng Yan, Xin Zhang, Yu Han, Hai-Yan Nan, Yu-Chuan Hu, Bo Hu, Song-Lin Yan, Jin Zhang, Dong-Liang Cheng, Xiang-Wei Ge, Guang-Bin Cui, Di Zhao, and Wen Wang. 2018. “Glioma Grading on Conventional MR Images: A Deep Learning Study With Transfer Learning.” Frontiers in Neuroscience 12:804-804. doi: 10.3389/fnins.2018.00804. google scholar
  • Yousefi, Mina, Adam Krzyzak, and Ching Y. Suen. 2018. “Mass Detection in Digital Breast Tomosynthesis Data Using Convolutional Neural Networks and Multiple Instance Learning.” Computers in Biology and Medicine 96:283-293. google scholar
  • Zhang, Min, Geoffrey S. Young, Huai Chen, Jing Li, Lei Qin, J. Ricardo McFaline-Figueroa, David A. Reardon, Xinhua Cao, Xian Wu, and Xiaoyin Xu. 2020. “Deep-Learning Detection of Cancer Metastases to the Brain on MRI.” Journal of Magnetic Resonance Imaging 52(4):1227-36. google scholar
  • Zhang, Yu-Dong, Shuihua Wang, Zhengchao Dong, Preetha Phillip, Genlin Ji, and Jiquan Yang. 2015. “Pathological Brain Detection in Magnetic Resonance Imaging Scanning by Wavelet Entropy and Hybridization of Biogeography-Based Optimization and Particle Swarm Optimization.” Progress In Electromagnetics Research 152:41-58. google scholar
  • Zhang, Yudong, Shuihua Wang, Genlin Ji, and Zhengchao Dong. 2013. “An MR Brain Images Classifier System via Particle Swarm Optimization and Kernel Support Vector Machine.” The Scientific World Journal 2013. google scholar
  • Zhou, Leilei, Zuoheng Zhang, Yu-Chen Chen, Zhen-Yu Zhao, Xin-Dao Yin, and Hong-Bing Jiang. 2019. “A Deep Learning-Based Radiomics Model for Differentiating Benign and Malignant Renal Tumors.” Translational Oncology 12(2):292-300. google scholar
  • Zuo, Haiqiang, Heng Fan, Erik Blasch, and Haibin Ling. 2017. “Combining Convolutional and Recurrent Neural Networks for Human Skin Detection.” IEEE Signal Processing Letters 24(3):289-293. google scholar

Citations

Copy and paste a formatted citation or use one of the options to export in your chosen format


EXPORT



APA

Sevli, O. (2021). Performance Comparison of Different Pre-Trained Deep Learning Models in Classifying Brain MRI Images. Acta Infologica, 5(1), 141-154. https://doi.org/10.26650/acin.880918


AMA

Sevli O. Performance Comparison of Different Pre-Trained Deep Learning Models in Classifying Brain MRI Images. Acta Infologica. 2021;5(1):141-154. https://doi.org/10.26650/acin.880918


ABNT

Sevli, O. Performance Comparison of Different Pre-Trained Deep Learning Models in Classifying Brain MRI Images. Acta Infologica, [Publisher Location], v. 5, n. 1, p. 141-154, 2021.


Chicago: Author-Date Style

Sevli, Onur,. 2021. “Performance Comparison of Different Pre-Trained Deep Learning Models in Classifying Brain MRI Images.” Acta Infologica 5, no. 1: 141-154. https://doi.org/10.26650/acin.880918


Chicago: Humanities Style

Sevli, Onur,. Performance Comparison of Different Pre-Trained Deep Learning Models in Classifying Brain MRI Images.” Acta Infologica 5, no. 1 (Nov. 2024): 141-154. https://doi.org/10.26650/acin.880918


Harvard: Australian Style

Sevli, O 2021, 'Performance Comparison of Different Pre-Trained Deep Learning Models in Classifying Brain MRI Images', Acta Infologica, vol. 5, no. 1, pp. 141-154, viewed 21 Nov. 2024, https://doi.org/10.26650/acin.880918


Harvard: Author-Date Style

Sevli, O. (2021) ‘Performance Comparison of Different Pre-Trained Deep Learning Models in Classifying Brain MRI Images’, Acta Infologica, 5(1), pp. 141-154. https://doi.org/10.26650/acin.880918 (21 Nov. 2024).


MLA

Sevli, Onur,. Performance Comparison of Different Pre-Trained Deep Learning Models in Classifying Brain MRI Images.” Acta Infologica, vol. 5, no. 1, 2021, pp. 141-154. [Database Container], https://doi.org/10.26650/acin.880918


Vancouver

Sevli O. Performance Comparison of Different Pre-Trained Deep Learning Models in Classifying Brain MRI Images. Acta Infologica [Internet]. 21 Nov. 2024 [cited 21 Nov. 2024];5(1):141-154. Available from: https://doi.org/10.26650/acin.880918 doi: 10.26650/acin.880918


ISNAD

Sevli, Onur. Performance Comparison of Different Pre-Trained Deep Learning Models in Classifying Brain MRI Images”. Acta Infologica 5/1 (Nov. 2024): 141-154. https://doi.org/10.26650/acin.880918



TIMELINE


Submitted15.02.2021
Accepted05.05.2021
Published Online29.07.2021

LICENCE


Attribution-NonCommercial (CC BY-NC)

This license lets others remix, tweak, and build upon your work non-commercially, and although their new works must also acknowledge you and be non-commercial, they don’t have to license their derivative works on the same terms.


SHARE




Istanbul University Press aims to contribute to the dissemination of ever growing scientific knowledge through publication of high quality scientific journals and books in accordance with the international publishing standards and ethics. Istanbul University Press follows an open access, non-commercial, scholarly publishing.