Histology images with multi-gigapixel of resolution yield rich information for cancer diagnosis and prognosis. Most of the time, only slide-level label is available because pixel-wise annotation is labour intensive task. In this paper, we propose a deep learning pipeline for classification in histology images. Using multiple instance learning, we attempt to predict the latent membrane protein 1 (LMP1) status of nasopharyngeal carcinoma (NPC) based on haematoxylin and eosin-stain (H&E) histology images. We utilised attention mechanism with residual connection for our aggregation layers. In our 3-fold cross-validation experiment, we achieved average accuracy, AUC and F1-score 0.936, 0.995 and 0.862, respectively. This method also allows us to examine the model interpretability by visualising attention scores. To the best of our knowledge, this is the first attempt to predict LMP1 status on NPC using deep learning.

Recently neural networks and multiple instance learning are both attractive topics in Artificial Intelligence related research fields. Deep neural networks have achieved great success in supervised learning problems, and multiple instance learning as a typical weakly-supervised learning method is effective for many applications in computer vision, biometrics, nature language processing, etc. In this paper, we revisit the problem of solving multiple instance learning problems using neural networks. Neural networks are appealing for solving multiple instance learning problem. The multiple instance neural networks perform multiple instance learning in an end-to-end way, which take a bag with various number of instances as input and directly output bag label. All of the parameters in a multiple instance network are able to be optimized via back-propagation. We propose a new multiple instance neural network to learn bag representations, which is different from the existing multiple instance neural networks that focus on estimating instance label. In addition, recent tricks developed in deep learning have been studied in multiple instance networks, we find deep supervision is effective for boosting bag classification accuracy. In the experiments, the proposed multiple instance networks achieve state-of-the-art or competitive performance on several MIL benchmarks. Moreover, it is extremely fast for both testing and training, e.g., it takes only 0.0003 second to predict a bag and a few seconds to train on a MIL datasets on a moderate CPU.