In the last years, automated segmentation has become a necessary tool for volume electron microscopy (EM) imaging. So far, the best performing techniques have been largely based on fully supervised encoder-decoder CNNs, requiring a substantial amount of annotated images. Domain Adaptation (DA) aims to alleviate the annotation burden by ‘adapting’ the networks trained on existing groundtruth data (source domain) to work on a different (target) domain with as little additional annotation as possible. Most DA research is focused on the classification task, whereas volume EM segmentation remains rather unexplored. In this work, we extend recently proposed classification DA techniques to an encoder-decoder layout and propose a novel method that adds a reconstruction decoder to the classical encoder-decoder segmentation in order to align source and target encoder features. The method has been validated on the task of segmenting mitochondria in EM volumes. We have performed DA from brain EM images to HeLa cells and from isotropic FIB SEM volumes to anisotropic TEM volumes. In all cases, the proposed method has outperformed the extended classification DA techniques and the finetuning baseline. An implementation of our work can be found on https: github.com JorisRoels domain-adaptive-segmentation.
We introduce a new representation learning approach for domain adaptation, in which data at training and test time come from similar but different distributions. Our approach is directly inspired by the theory on domain adaptation suggesting that, for effective domain transfer to be achieved, predictions must be made based on features that cannot discriminate between the training (source) and test (target) domains. The approach implements this idea in the context of neural network architectures that are trained on labeled data from the source domain and unlabeled data from the target domain (no labeled target-domain data is necessary). As the training progresses, the approach promotes the emergence of features that are (i) discriminative for the main learning task on the source domain and (ii) indiscriminate with respect to the shift between the domains. We show that this adaptation behaviour can be achieved in almost any feed-forward model by augmenting it with few standard layers and a new gradient reversal layer. The resulting augmented architecture can be trained using standard backpropagation and stochastic gradient descent, and can thus be implemented with little effort using any of the deep learning packages. We demonstrate the success of our approach for two distinct classification problems (document sentiment analysis and image classification), where state-of-the-art domain adaptation performance on standard benchmarks is achieved. We also validate the approach for descriptor learning task in the context of person re-identification application. Deep neural networks are able to learn powerful representations from large quantities of labeled input data, however they cannot always generalize well across changes in input distributions. Domain adaptation algorithms have been proposed to compensate for the degradation in performance due to domain shift. In this paper, we address the case when the target domain is unlabeled, requiring unsupervised adaptation. CORAL [18] is a simple unsupervised domain adaptation method that aligns the second-order statistics of the source and target distributions with a linear transformation. Here, we extend CORAL to learn a nonlinear transformation that aligns correlations of layer activations in deep neural networks (Deep CORAL). Experiments on standard benchmark datasets show state-of-the-art performance. Our code is available at: https: github.com VisionLearningGroup CORAL. Recent studies reveal that a deep neural network can learn transferable features which generalize well to novel tasks for domain adaptation. However, as deep features eventually transition from general to specific along the network, the feature transferability drops significantly in higher layers with increasing domain discrepancy. Hence, it is important to formally reduce the dataset bias and enhance the transferability in task-specific layers. In this paper, we propose a new Deep Adaptation Network (DAN) architecture, which generalizes deep convolutional neural network to the domain adaptation scenario. In DAN, hidden representations of all task-specific layers are embedded in a reproducing kernel Hilbert space where the mean embeddings of different domain distributions can be explicitly matched. The domain discrepancy is further reduced using an optimal multikernel selection method for mean embedding matching. DAN can learn transferable features with statistical guarantees, and can scale linearly by unbiased estimate of kernel embedding. Extensive empirical evidence shows that the proposed architecture yields state-of-the-art image classification error rates on standard domain adaptation benchmarks.