An Invasive Ductal Carcinomas Breast Cancer Grade Classification Using an Ensemble of Convolutional Neural Networks
Abstract
:1. Introduction
- In the present study, an ensemble model comprising three pre-trained convolutional neural networks (CNNs) was designed to make grading predictions for the Databiox dataset, which consists of histopathological images of IDC-diagnosed patients for this grade classification. Different pre-trained base models were analysed for their performances individually and in combination to determine the most optimal and coherent solution for breast cancer grade classification.
- In Databiox, the dataset is imbalanced and the distribution of images among the different grades and total number of images in each grade are insufficient for training a CNN. This may lead the problem of bias towards one particular class with more images. To overcome this issue, data augmentation techniques were employed to balance the dataset. The performance of the best model was compared for three different balanced datasets of Databiox (i.e., 1200, 1400, and 1600 images) to ensure the limit of the data augmentation.
- Additionally, the implications of the number of epochs were also demonstrated throughout this experimental work. The performances of the models were observed for four different numbers of epochs, which further determined the robustness and coherency of the proposed ensemble model. The performance of the proposed models was analysed by utilizing the evaluation parameters, namely, precision, recall, f1 score, accuracy, ROC curve, and the area under the ROC curve (AUC).
2. Material and Method Used
2.1. Dataset
2.2. Data Pre-Processing and Augmentation
2.3. Convolutional Neural Networks (CNNs)
2.4. Ensemble of CNNs
3. Results and Discussion
3.1. Confusion Matrix
Time Complexity
3.2. Comparison of the State-of-the-Art Techniques
4. Conclusions
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Acknowledgments
Conflicts of Interest
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Confusion Matrix | Predicted Class | |||
---|---|---|---|---|
Grade 0 | Grade 1 | Grade 2 | ||
Actual Class | Grade 0 | GC00 | GC01 | GC02 |
Grade 1 | GC10 | GC11 | GC12 | |
Grade 2 | GC20 | GC21 | GC22 |
Number of Epochs = 5 | |||||
---|---|---|---|---|---|
CNN Model | Grade | Precision | Recall | F1-Score | Accuracy |
Model 1: EfficientNetV2L | Grade 0 | 0.78 | 0.74 | 0.76 | 0.71 |
Grade 1 | 0.72 | 0.62 | 0.67 | ||
Grade 2 | 0.66 | 0.79 | 0.72 | ||
Model 2: ResNet152V2 | Grade 0 | 0.35 | 0.82 | 0.49 | 0.45 |
Grade 1 | 0.66 | 0.24 | 0.36 | ||
Grade 2 | 0.55 | 0.40 | 0.46 | ||
Model 3: DenseNet201 | Grade 0 | 0.87 | 0.33 | 0.48 | 0.47 |
Grade 1 | 0.73 | 0.12 | 0.20 | ||
Grade 2 | 0.41 | 0.96 | 0.57 | ||
Ensemble of CNN model (Model 1 + Model 2 + Model 3) | Grade 0 | 0.78 | 0.77 | 0.78 | 0.75 |
Grade 1 | 0.67 | 0.82 | 0.74 | ||
Grade 2 | 0.85 | 0.65 | 0.73 | ||
Number of epochs = 10 | |||||
CNN model | Grade | Precision | Recall | F1-Score | Accuracy |
Model 1: EfficientNetV2L | Grade 0 | 0.70 | 0.87 | 0.77 | 0.76 |
Grade 1 | 0.78 | 0.78 | 0.78 | ||
Grade 2 | 0.80 | 0.67 | 0.73 | ||
Model 2: ResNet152V2 | Grade 0 | 0.66 | 0.61 | 0.63 | 0.61 |
Grade 1 | 0.65 | 0.53 | 0.58 | ||
Grade 2 | 0.55 | 0.69 | 0.61 | ||
Model 3: DenseNet201 | Grade 0 | 0.56 | 0.75 | 0.64 | 0.69 |
Grade 1 | 0.77 | 0.57 | 0.66 | ||
Grade 2 | 0.75 | 0.78 | 0.76 | ||
Ensemble of CNN model (Model 1 + Model 2 + Model 3) | Grade 0 | 0.78 | 0.80 | 0.79 | 0.78 |
Grade 1 | 0.74 | 0.84 | 0.79 | ||
Grade 2 | 0.84 | 0.69 | 0.76 | ||
Number of epochs = 15 | |||||
CNN model | Grade | Precision | Recall | F1-Score | Accuracy |
Model 1: EfficientNetV2L | Grade 0 | 0.00 | 0.00 | 0.00 | 0.37 |
Grade 1 | 0.38 | 0.83 | 0.52 | ||
Grade 2 | 0.34 | 0.16 | 0.22 | ||
Model 2: ResNet152V2 | Grade 0 | 0.28 | 1.00 | 0.43 | 0.28 |
Grade 1 | 0.00 | 0.00 | 0.00 | ||
Grade 2 | 0.00 | 0.00 | 0.00 | ||
Model 3: DenseNet201 | Grade 0 | 0.00 | 0.00 | 0.00 | 0.34 |
Grade 1 | 0.00 | 0.00 | 0.00 | ||
Grade 2 | 0.34 | 0.99 | 0.51 | ||
Ensemble of CNN model (Model 1 + Model 2 + Model 3) | Grade 0 | 0.82 | 0.76 | 0.79 | 0.78 |
Grade 1 | 0.76 | 0.80 | 0.78 | ||
Grade 2 | 0.78 | 0.78 | 0.78 | ||
Number of epochs = 20 | |||||
CNN model | Grade | Precision | Recall | F1-Score | Accuracy |
Model 1: EfficientNetV2L | Grade 0 | 0.74 | 0.83 | 0.79 | 0.82 |
Grade 1 | 0.83 | 0.83 | 0.83 | ||
Grade 2 | 0.87 | 0.79 | 0.83 | ||
Model 2: ResNet152V2 | Grade 0 | 0.64 | 0.55 | 0.59 | 0.62 |
Grade 1 | 0.66 | 0.72 | 0.69 | ||
Grade 2 | 0.55 | 0.56 | 0.55 | ||
Model 3: DenseNet201 | Grade 0 | 0.66 | 0.67 | 0.66 | 0.69 |
Grade 1 | 0.66 | 0.80 | 0.72 | ||
Grade 2 | 0.83 | 0.56 | 0.67 | ||
Ensemble of CNN model (Model 1 + Model 2 + Model 3) | Grade 0 | 0.82 | 0.88 | 0.85 | 0.85 |
Grade 1 | 0.85 | 0.87 | 0.86 | ||
Grade 2 | 0.89 | 0.80 | 0.84 |
Number of Epochs = 5 | |||||
---|---|---|---|---|---|
CNN Model | Grade | Precision | Recall | F1-Score | Accuracy |
Model 1: EfficientNetV2L | Grade 0 | 0.64 | 0.94 | 0.76 | 0.79 |
Grade 1 | 0.82 | 0.73 | 0.78 | ||
Grade 2 | 0.95 | 0.74 | 0.83 | ||
Model 2: ResNet152V2 | Grade 0 | 0.38 | 0.72 | 0.49 | 0.45 |
Grade 1 | 0.51 | 0.38 | 0.43 | ||
Grade 2 | 0.52 | 0.33 | 0.40 | ||
Model 3: DenseNet201 | Grade 0 | 0.48 | 0.51 | 0.49 | 0.37 |
Grade 1 | 0.26 | 0.11 | 0.15 | ||
Grade 2 | 0.35 | 0.56 | 0.43 | ||
Ensemble of CNN model (Model 1 + Model 2 + Model 3) | Grade 0 | 0.89 | 0.80 | 0.84 | 0.81 |
Grade 1 | 0.76 | 0.83 | 0.80 | ||
Grade 2 | 0.80 | 0.78 | 0.79 | ||
Number of epochs = 10 | |||||
CNN model | Grade | Precision | Recall | F1-Score | Accuracy |
Model 1: EfficientNetV2L | Grade 0 | 0.84 | 0.93 | 0.88 | 0.85 |
Grade 1 | 0.88 | 0.80 | 0.84 | ||
Grade 2 | 0.84 | 0.86 | 0.85 | ||
Model 2: ResNet152V2 | Grade 0 | 0.94 | 0.21 | 0.34 | 0.53 |
Grade 1 | 0.45 | 0.81 | 0.58 | ||
Grade 2 | 0.65 | 0.45 | 0.53 | ||
Model 3: DenseNet201 | Grade 0 | 0.54 | 0.77 | 0.64 | 0.62 |
Grade 1 | 0.85 | 0.36 | 0.50 | ||
Grade 2 | 0.61 | 0.81 | 0.70 | ||
Ensemble of CNN model (Model 1 + Model 2 + Model 3) | Grade 0 | 0.87 | 0.92 | 0.89 | 0.88 |
Grade 1 | 0.86 | 0.84 | 0.85 | ||
Grade 2 | 0.90 | 0.88 | 0.89 | ||
Number of epochs = 15 | |||||
CNN model | Grade | Precision | Recall | F1-Score | Accuracy |
Model 1: EfficientNetV2L | Grade 0 | 0.96 | 0.93 | 0.94 | 0.88 |
Grade 1 | 0.84 | 0.87 | 0.86 | ||
Grade 2 | 0.86 | 0.84 | 0.85 | ||
Model 2: ResNet152V2 | Grade 0 | 0.59 | 0.70 | 0.64 | 0.59 |
Grade 1 | 0.67 | 0.45 | 0.54 | ||
Grade 2 | 0.53 | 0.65 | 0.59 | ||
Model 3: DenseNet201 | Grade 0 | 0.70 | 0.65 | 0.67 | 0.72 |
Grade 1 | 0.65 | 0.84 | 0.74 | ||
Grade 2 | 0.86 | 0.63 | 0.73 | ||
Ensemble of CNN model (Model 1 + Model 2 + Model 3) | Grade 0 | 0.87 | 0.94 | 0.91 | 0.91 |
Grade 1 | 0.91 | 0.88 | 0.89 | ||
Grade 2 | 0.95 | 0.92 | 0.93 | ||
Number of epochs = 20 | |||||
CNN model | Grade | Precision | Recall | F1-Score | Accuracy |
Model 1: EfficientNetV2L | Grade 0 | 0.29 | 0.39 | 0.34 | 0.32 |
Grade 1 | 0.35 | 0.24 | 0.28 | ||
Grade 2 | 0.33 | 0.36 | 0.34 | ||
Model 2: ResNet152V2 | Grade 0 | 0.00 | 0.00 | 0.00 | 0.36 |
Grade 1 | 0.00 | 0.00 | 0.00 | ||
Grade 2 | 0.36 | 1.00 | 0.53 | ||
Model 3: DenseNet201 | Grade 0 | 0.23 | 0.58 | 0.33 | 0.27 |
Grade 1 | 0.32 | 0.31 | 0.32 | ||
Grade 2 | 0.00 | 0.00 | 0.00 | ||
Ensemble of CNN model (Model 1 + Model 2 + Model 3) | Grade 0 | 0.97 | 0.93 | 0.95 | 0.94 |
Grade 1 | 0.90 | 0.95 | 0.92 | ||
Grade 2 | 0.97 | 0.93 | 0.95 |
Number of Epochs = 5 | |||||
---|---|---|---|---|---|
CNN Model | Grade | Precision | Recall | F1-Score | Accuracy |
Model 1: EfficientNetV2L | Grade 0 | 0.59 | 0.90 | 0.71 | 0.70 |
Grade 1 | 0.92 | 0.50 | 0.64 | ||
Grade 2 | 0.68 | 0.80 | 0.73 | ||
Model 2: ResNet152V2 | Grade 0 | 0.31 | 0.90 | 0.47 | 0.37 |
Grade 1 | 0.49 | 0.29 | 0.36 | ||
Grade 2 | 0.55 | 0.06 | 0.10 | ||
Model 3: DenseNet201 | IDC Grade 0 | 0.38 | 0.82 | 0.52 | 0.44 |
Grade 1 | 0.45 | 0.10 | 0.16 | ||
Grade 2 | 0.53 | 0.60 | 0.56 | ||
Ensemble of CNN model (Model 1 + Model 2 + Model 3) | Grade 0 | 0.78 | 0.72 | 0.75 | 0.79 |
Grade 1 | 0.78 | 0.83 | 0.81 | ||
Grade 2 | 0.82 | 0.80 | 0.81 | ||
Number of epochs = 10 | |||||
CNN model | Grade | Precision | Recall | F1-Score | Accuracy |
Model 1: EfficientNetV2L | Grade 0 | 0.27 | 0.03 | 0.06 | 0.32 |
Grade 1 | 0.39 | 0.09 | 0.15 | ||
Grade 2 | 0.32 | 0.85 | 0.46 | ||
Model 2: ResNet152V2 | Grade 0 | 0.00 | 0.00 | 0.00 | 0.40 |
Grade 1 | 0.40 | 1.00 | 0.57 | ||
Grade 2 | 0.00 | 0.00 | 0.00 | ||
Model 3: DenseNet201 | Grade 0 | 0.00 | 0.00 | 0.00 | 0.38 |
Grade 1 | 0.39 | 0.93 | 0.55 | ||
Grade 2 | 0.22 | 0.02 | 0.04 | ||
Ensemble of CNN model (Model 1 + Model 2 + Model 3) | Grade 0 | 0.79 | 0.89 | 0.83 | 0.86 |
Grade 1 | 0.92 | 0.84 | 0.87 | ||
Grade 2 | 0.86 | 0.86 | 0.86 | ||
Number of epochs = 15 | |||||
CNN model | Grade | Precision | Recall | F1-Score | Accuracy |
Model 1: EfficientNetV2L | Grade 0 | 0.36 | 0.04 | 0.07 | 0.34 |
Grade 1 | 0.35 | 0.91 | 0.51 | ||
Grade 2 | 0.21 | 0.05 | 0.09 | ||
Model 2: ResNet152V2 | Grade 0 | 0.32 | 1.00 | 0.48 | 0.32 |
Grade 1 | 0.00 | 0.00. | 0.00 | ||
Grade 2 | 0.00 | 0.00 | 0.00 | ||
Model 3: DenseNet201 | Grade 0 | 0.26 | 0.56 | 0.36 | 0.25 |
Grade 1 | 0.26 | 0.22 | 0.24 | ||
Grade 2 | 0.00 | 0.00 | 0.00 | ||
Ensemble of CNN model (Model 1 + Model 2 + Model 3) | Grade 0 | 0.92 | 0.81 | 0.86 | 0.86 |
Grade 1 | 0.81 | 0.94 | 0.87 | ||
Grade 2 | 0.88 | 0.83 | 0.85 | ||
Number of epochs = 20 | |||||
CNN model | Grade | Precision | Recall | F1-Score | Accuracy |
Model 1: EfficientNetV2L | Grade 0 | 0.24 | 0.64 | 0.35 | 0.24 |
Grade 1 | 0.45 | 0.04 | 0.07 | ||
Grade 2 | 0.19 | 0.15 | 0.16 | ||
Model 2: ResNet152V2 | Grade 0 | 0.23 | 0.14 | 0.17 | 0.39 |
Grade 1 | 0.42 | 0.88 | 0.57 | ||
Grade 2 | 0.00 | 0.00 | 0.00 | ||
Model 3: DenseNet201 | Grade 0 | 0.43 | 0.28 | 0.34 | 0.47 |
Grade 1 | 0.48 | 0.67 | 0.56 | ||
Grade 2 | 0.48 | 0.39 | 0.43 | ||
Ensemble of CNN model (Model 1 + Model 2 + Model 3) | Grade 0 | 0.86 | 0.85 | 0.86 | 0.87 |
Grade 1 | 0.85 | 0.89 | 0.87 | ||
Grade 2 | 0.89 | 0.84 | 0.87 |
Sample Size | Grade | Precision | Recall | F1-Score | AUC | Accuracy |
---|---|---|---|---|---|---|
1200 | Grade 0 | 0.82 | 0.88 | 0.85 | 0.90 | 0.85 |
Grade 1 | 0.85 | 0.87 | 0.86 | 0.87 | ||
Grade 2 | 0.89 | 0.80 | 0.84 | 0.88 | ||
1400 | Grade 0 | 0.97 | 0.93 | 0.95 | 0.96 | 0.94 |
Grade 1 | 0.90 | 0.95 | 0.92 | 0.94 | ||
Grade 2 | 0.97 | 0.93 | 0.95 | 0.96 | ||
1600 | Grade 0 | 0.86 | 0.85 | 0.86 | 0.90 | 0.87 |
Grade 1 | 0.85 | 0.89 | 0.87 | 0.89 | ||
Grade 2 | 0.89 | 0.84 | 0.87 | 0.90 |
Samples | Epochs | Time for Data Augmentation (In Minutes) | Time for Training and Validation (In Minutes) | Total Time (In Minutes) |
---|---|---|---|---|
1200 | 5 | 21 | 27 | 48 |
10 | 21 | 33 | 54 | |
15 | 21 | 46 | 67 | |
20 | 21 | 50 | 71 | |
1400 | 5 | 24 | 30 | 54 |
10 | 24 | 39 | 63 | |
15 | 24 | 48 | 72 | |
20 | 24 | 53 | 77 | |
1600 | 5 | 28 | 34 | 62 |
10 | 28 | 42 | 70 | |
15 | 28 | 49 | 77 | |
20 | 28 | 58 | 86 |
Reference | Year | Approach | Performance Metric |
---|---|---|---|
Zavareh et al. [22] | 2021 | Transfer learning approach (VGG16 used as feature extractor) | Accuracy of 72% |
Kumaraswamy et al. [25] | 2021 | Transfer learning approach pre-trained CNNs: DensNet201 and NASNetMobile used as feature extractors) | Accuracy of 72%. AUC for Grade 1, and Grade 2 is 98% and 75%, respectively with DensNet201 AUC for Grade 3 is 69% with NASNetMobile |
Sujatha et al. [24] | 2022 | Transfer learning approaches (Utilized VGG16, VGG19, InceptionReNetV2, DenseNet121, and DenseNet201) | DenseNet121 produced the highest accuracy of 92.64% |
Talpur et al. [23] | 2022 | A sequential convolutional neural network is utilised | Accuracy of 92.81% |
Present Work | 2023 | Proposed Ensemble Model(EfficientNetV2L + ResNet152V2 + DensNet201) | Accuracy of 94%. AUC of 96%, 94% and 96% for Grades 0, 1, and 2, respectively. |
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Share and Cite
Kumaraswamy, E.; Kumar, S.; Sharma, M. An Invasive Ductal Carcinomas Breast Cancer Grade Classification Using an Ensemble of Convolutional Neural Networks. Diagnostics 2023, 13, 1977. https://doi.org/10.3390/diagnostics13111977
Kumaraswamy E, Kumar S, Sharma M. An Invasive Ductal Carcinomas Breast Cancer Grade Classification Using an Ensemble of Convolutional Neural Networks. Diagnostics. 2023; 13(11):1977. https://doi.org/10.3390/diagnostics13111977
Chicago/Turabian StyleKumaraswamy, Eelandula, Sumit Kumar, and Manoj Sharma. 2023. "An Invasive Ductal Carcinomas Breast Cancer Grade Classification Using an Ensemble of Convolutional Neural Networks" Diagnostics 13, no. 11: 1977. https://doi.org/10.3390/diagnostics13111977
APA StyleKumaraswamy, E., Kumar, S., & Sharma, M. (2023). An Invasive Ductal Carcinomas Breast Cancer Grade Classification Using an Ensemble of Convolutional Neural Networks. Diagnostics, 13(11), 1977. https://doi.org/10.3390/diagnostics13111977