Pathologists find tedious to examine the status of the sentinel lymph node on a large number of pathological scans. The examination process of such lymph node which encompasses metastasized cancer cells is histopathologically organized. However, the task of finding metastatic tissues is gradual which is often challenging. In this work, we present our deep convolutional neural network based model validated on PatchCamelyon (PCam) benchmark dataset for fundamental machine learning research in histopathology diagnosis. We find that our proposed model trained with a semi-supervised learning approach by using pseudo labels on PCam-level significantly leads to better performances to strong CNN baseline on the AUC metric.
@cite_20 proposed rotation equivariant CNNs showing that rotation equivariance improved tumor detection on a challenging lymph node metastases dataset. The authors suggested a fully-convolutional patch-classification model that is equivariant to 90" rotations and reflection. The model has shown a notable advance on the Camelyon16 benchmark @cite_13 dataset.
@cite_13 @cite_20
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We propose a new model for digital pathology segmentation, based on the observation that histopathology images are inherently symmetric under rotation and reflection. Utilizing recent findings on rotation equivariant CNNs, the proposed model leverages these symmetries in a principled manner. We present a visual analysis showing improved stability on predictions, and demonstrate that exploiting rotation equivariance significantly improves tumor detection performance on a challenging lymph node metastases dataset. We further present a novel derived dataset to enable principled comparison of machine learning models, in combination with an initial benchmark. Through this dataset, the task of histopathology diagnosis becomes accessible as a challenging benchmark for fundamental machine learning research. Convolutional Neural Networks (CNN) are state-of-the-art models for many image classification tasks. However, to recognize cancer subtypes automatically, training a CNN on gigapixel resolution Whole Slide Tissue Images (WSI) is currently computationally impossible. The differentiation of cancer subtypes is based on cellular-level visual features observed on image patch scale. Therefore, we argue that in this situation, training a patch-level classifier on image patches will perform better than or similar to an image-level classifier. The challenge becomes how to intelligently combine patch-level classification results and model the fact that not all patches will be discriminative. We propose to train a decision fusion model to aggregate patch-level predictions given by patch-level CNNs, which to the best of our knowledge has not been shown before. Furthermore, we formulate a novel Expectation-Maximization (EM) based method that automatically locates discriminative patches robustly by utilizing the spatial relationships of patches. We apply our method to the classification of glioma and non-small-cell lung carcinoma cases into subtypes. The classification accuracy of our method is similar to the inter-observer agreement between pathologists. Although it is impossible to train CNNs on WSIs, we experimentally demonstrate using a comparable non-cancer dataset of smaller images that a patch-based CNN can outperform an image-based CNN. Despite breakthroughs in image classification due to the evolution of deep learning and, in particular, convolutional neural networks (CNNs), state-of-the-art models only possess a very limited amount of rotational invariance. Known workarounds include artificial rotations of the training data or ensemble approaches, where several models are evaluated. These approaches either increase the workload of the training or inflate the number of parameters. Further approaches add rotational invariance by globally pooling over rotationally equivariant features. Instead, we propose to incorporate rotational invariance into the feature-extraction part of the CNN directly. This allows to train on unrotated data and perform well on a rotated test set. We use rotational convolutions and introduce a rotational pooling layer that performs a pooling over the back-rotated output feature maps. We show that when training on the original, unrotated MNIST training dataset, but evaluating on rotations of the MNIST test dataset, the error rate can be reduced substantially from 58.20 to 12.20 . Similar results are shown for the CIFAR-10 and CIFAR-100 datasets. Translating or rotating an input image should not affect the results of many computer vision tasks. Convolutional neural networks (CNNs) are already translation equivariant: input image translations produce proportionate feature map translations. This is not the case for rotations. Global rotation equivariance is typically sought through data augmentation, but patch-wise equivariance is more difficult. We present Harmonic Networks or H-Nets, a CNN exhibiting equivariance to patch-wise translation and 360-rotation. We achieve this by replacing regular CNN filters with circular harmonics, returning a maximal response and orientation for every receptive field patch. H-Nets use a rich, parameter-efficient and low computational complexity representation, and we show that deep feature maps within the network encode complicated rotational invariants. We demonstrate that our layers are general enough to be used in conjunction with the latest architectures and techniques, such as deep supervision and batch normalization. We also achieve state-of-the-art classification on rotated-MNIST, and competitive results on other benchmark challenges.