Accurate identification and localization of abnormalities from radiology images play an integral part in clinical diagnosis and treatment planning. Building a highly accurate prediction model for these tasks usually requires a large number of images manually annotated with labels and finding sites of abnormalities. In reality, however, such annotated data are expensive to acquire, especially the ones with location annotations. We need methods that can work well with only a small amount of location annotations. To address this challenge, we present a unified approach that simultaneously performs disease identification and localization through the same underlying model for all images. We demonstrate that our approach can effectively leverage both class information as well as limited location annotation, and significantly outperforms the comparative reference baseline in both classification and localization tasks.
Zhang al proposed a dual-attention model using images and optional texts to make accurate prediction @cite_33 . In @cite_14 , Zhang al proposed an image-to-text model to establish a direct mapping from medical images to diagnostic reports. Both models were evaluated on a dataset of bladder cancer images and corresponding diagnostic reports. Wang al took advantage of a large-scale chest X-ray dataset to formulate the disease diagnosis problem as multi-label classification, using class-specific image feature transformation @cite_39 . They also applied a thresholding method to the feature map visualization @cite_11 for each class and derived the bounding box for each disease. Their qualitative results showed that the model usually generated much larger bounding box than the ground-truth. Hwang al @cite_30 proposed a self-transfer learning framework to learn localization from the globally pooled class-specific feature maps supervised by image labels. These works have the same essence with class activation mapping @cite_19 which handles natural images. The location annotation information was not directly formulated into the loss function in the none of these works. Feature map pooling based localization did not effectively capture the precise disease regions.
@cite_30 @cite_14 @cite_33 @cite_39 @cite_19 @cite_11
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The inability to interpret the model prediction in semantically and visually meaningful ways is a well-known shortcoming of most existing computer-aided diagnosis methods. In this paper, we propose MDNet to establish a direct multimodal mapping between medical images and diagnostic reports that can read images, generate diagnostic reports, retrieve images by symptom descriptions, and visualize attention, to provide justifications of the network diagnosis process. MDNet includes an image model and a language model. The image model is proposed to enhance multi-scale feature ensembles and utilization efficiency. The language model, integrated with our improved attention mechanism, aims to read and explore discriminative image feature descriptions from reports to learn a direct mapping from sentence words to image pixels. The overall network is trained end-to-end by using our developed optimization strategy. Based on a pathology bladder cancer images and its diagnostic reports (BCIDR) dataset, we conduct sufficient experiments to demonstrate that MDNet outperforms comparative baselines. The proposed image model obtains state-of-the-art performance on two CIFAR datasets as well. The inability to interpret the model prediction in semantically and visually meaningful ways is a well-known shortcoming of most existing computer-aided diagnosis methods. In this paper, we propose MDNet to establish a direct multimodal mapping between medical images and diagnostic reports that can read images, generate diagnostic reports, retrieve images by symptom descriptions, and visualize attention, to provide justifications of the network diagnosis process. MDNet includes an image model and a language model. The image model is proposed to enhance multi-scale feature ensembles and utilization efficiency. The language model, integrated with our improved attention mechanism, aims to read and explore discriminative image feature descriptions from reports to learn a direct mapping from sentence words to image pixels. The overall network is trained end-to-end by using our developed optimization strategy. Based on a pathology bladder cancer images and its diagnostic reports (BCIDR) dataset, we conduct sufficient experiments to demonstrate that MDNet outperforms comparative baselines. The proposed image model obtains state-of-the-art performance on two CIFAR datasets as well. In this work, we exploit the task of joint classification and weakly supervised localization of thoracic diseases from chest radiographs, with only image-level disease labels coupled with disease severity-level (DSL) information of a subset. A convolutional neural network (CNN) based attention-guided curriculum learning (AGCL) framework is presented, which leverages the severity-level attributes mined from radiology reports. Images in order of difficulty (grouped by different severity-levels) are fed to CNN to boost the learning gradually. In addition, highly confident samples (measured by classification probabilities) and their corresponding class-conditional heatmaps (generated by the CNN) are extracted and further fed into the AGCL framework to guide the learning of more distinctive convolutional features in the next iteration. A two-path network architecture is designed to regress the heatmaps from selected seed samples in addition to the original classification task. The joint learning scheme can improve the classification and localization performance along with more seed samples for the next iteration. We demonstrate the effectiveness of this iterative refinement framework via extensive experimental evaluations on the publicly available ChestXray14 dataset. AGCL achieves over 5.7 (averaged over 14 diseases) increase in classification AUC and 7 11 increases in Recall Precision for the localization task compared to the state of the art. We present an adversarial domain adaptation based deep learning approach for automatic tumor segmentation from T2-weighted MRI. Our approach is composed of two steps: (i) a tumor-aware unsupervised cross-domain adaptation (CT to MRI), followed by (ii) semi-supervised tumor segmentation using Unet trained with synthesized and limited number of original MRIs. We introduced a novel target specific loss, called tumor-aware loss, for unsupervised cross-domain adaptation that helps to preserve tumors on synthesized MRIs produced from CT images. In comparison, state-of-the art adversarial networks trained without our tumor-aware loss produced MRIs with ill-preserved or missing tumors. All networks were trained using labeled CT images from 377 patients with non-small cell lung cancer obtained from the Cancer Imaging Archive and unlabeled T2w MRIs from a completely unrelated cohort of 6 patients with pre-treatment and 36 on-treatment scans. Next, we combined 6 labeled pre-treatment MRI scans with the synthesized MRIs to boost tumor segmentation accuracy through semi-supervised learning. Semi-supervised training of cycle-GAN produced a segmentation accuracy of 0.66 computed using Dice Score Coefficient (DSC). Our method trained with only synthesized MRIs produced an accuracy of 0.74 while the same method trained in semi-supervised setting produced the best accuracy of 0.80 on test. Our results show that tumor-aware adversarial domain adaptation helps to achieve reasonably accurate cancer segmentation from limited MRI data by leveraging large CT datasets. In this paper, we introduce the semantic knowledge of medical images from their diagnostic reports to provide an inspirational network training and an interpretable prediction mechanism with our proposed novel multimodal neural network, namely TandemNet. Inside TandemNet, a language model is used to represent report text, which cooperates with the image model in a tandem scheme. We propose a novel dual-attention model that facilitates high-level interactions between visual and semantic information and effectively distills useful features for prediction. In the testing stage, TandemNet can make accurate image prediction with an optional report text input. It also interprets its prediction by producing attention on the image and text informative feature pieces, and further generating diagnostic report paragraphs. Based on a pathological bladder cancer images and their diagnostic reports (BCIDR) dataset, sufficient experiments demonstrate that our method effectively learns and integrates knowledge from multimodalities and obtains significantly improved performance than comparing baselines. In spite of the compelling achievements that deep neural networks (DNNs) have made in medical image computing, these deep models often suffer from degraded performance when being applied to new test datasets with domain shift. In this paper, we present a novel unsupervised domain adaptation approach for segmentation tasks by designing semantic-aware generative adversarial networks (GANs). Specifically, we transform the test image into the appearance of source domain, with the semantic structural information being well preserved, which is achieved by imposing a nested adversarial learning in semantic label space. In this way, the segmentation DNN learned from the source domain is able to be directly generalized to the transformed test image, eliminating the need of training a new model for every new target dataset. Our domain adaptation procedure is unsupervised, without using any target domain labels. The adversarial learning of our network is guided by a GAN loss for mapping data distributions, a cycle-consistency loss for retaining pixel-level content, and a semantic-aware loss for enhancing structural information. We validated our method on two different chest X-ray public datasets for left right lung segmentation. Experimental results show that the segmentation performance of our unsupervised approach is highly competitive with the upper bound of supervised transfer learning. We aim to model the top-down attention of a convolutional neural network (CNN) classifier for generating task-specific attention maps. Inspired by a top-down human visual attention model, we propose a new backpropagation scheme, called Excitation Backprop, to pass along top-down signals downwards in the network hierarchy via a probabilistic Winner-Take-All process. Furthermore, we introduce the concept of contrastive attention to make the top-down attention maps more discriminative. We show a theoretic connection between the proposed contrastive attention formulation and the Class Activation Map computation. Efficient implementation of Excitation Backprop for common neural network layers is also presented. In experiments, we visualize the evidence of a model’s classification decision by computing the proposed top-down attention maps. For quantitative evaluation, we report the accuracy of our method in weakly supervised localization tasks on the MS COCO, PASCAL VOC07 and ImageNet datasets. The usefulness of our method is further validated in the text-to-region association task. On the Flickr30k Entities dataset, we achieve promising performance in phrase localization by leveraging the top-down attention of a CNN model that has been trained on weakly labeled web images. Finally, we demonstrate applications of our method in model interpretation and data annotation assistance for facial expression analysis and medical imaging tasks. We aim to model the top-down attention of a convolutional neural network (CNN) classifier for generating task-specific attention maps. Inspired by a top-down human visual attention model, we propose a new backpropagation scheme, called Excitation Backprop, to pass along top-down signals downwards in the network hierarchy via a probabilistic Winner-Take-All process. Furthermore, we introduce the concept of contrastive attention to make the top-down attention maps more discriminative. We show a theoretic connection between the proposed contrastive attention formulation and the Class Activation Map computation. Efficient implementation of Excitation Backprop for common neural network layers is also presented. In experiments, we visualize the evidence of a model’s classification decision by computing the proposed top-down attention maps. For quantitative evaluation, we report the accuracy of our method in weakly supervised localization tasks on the MS COCO, PASCAL VOC07 and ImageNet datasets. The usefulness of our method is further validated in the text-to-region association task. On the Flickr30k Entities dataset, we achieve promising performance in phrase localization by leveraging the top-down attention of a CNN model that has been trained on weakly labeled web images. Finally, we demonstrate applications of our method in model interpretation and data annotation assistance for facial expression analysis and medical imaging tasks. Despite the recent advances in automatically describing image contents, their applications have been mostly limited to image caption datasets containing natural images (e.g., Flickr 30k, MSCOCO). In this paper, we present a deep learning model to efficiently detect a disease from an image and annotate its contexts (e.g., location, severity and the affected organs). We employ a publicly available radiology dataset of chest x-rays and their reports, and use its image annotations to mine disease names to train convolutional neural networks (CNNs). In doing so, we adopt various regularization techniques to circumvent the large normal-vs-diseased cases bias. Recurrent neural networks (RNNs) are then trained to describe the contexts of a detected disease, based on the deep CNN features. Moreover, we introduce a novel approach to use the weights of the already trained pair of CNN RNN on the domain-specific image text dataset, to infer the joint image text contexts for composite image labeling. Significantly improved image annotation results are demonstrated using the recurrent neural cascade model by taking the joint image text contexts into account. Abstract Machine learning approaches hold great potential for the automated detection of lung nodules on chest radiographs, but training algorithms requires very large amounts of manually annotated radiographs, which are difficult to obtain. The increasing availability of PACS (Picture Archiving and Communication System), is laying the technological foundations needed to make available large volumes of clinical data and images from hospital archives. Binary labels indicating whether a radiograph contains a pulmonary lesion can be extracted at scale, using natural language processing algorithms. In this study, we propose two novel neural networks for the detection of chest radiographs containing pulmonary lesions. Both architectures make use of a large number of weakly-labelled images combined with a smaller number of manually annotated x-rays. The annotated lesions are used during training to deliver a type of visual attention feedback informing the networks about their lesion localisation performance. The first architecture extracts saliency maps from high-level convolutional layers and compares the inferred position of a lesion against the true position when this information is available; a localisation error is then back-propagated along with the softmax classification error. The second approach consists of a recurrent attention model that learns to observe a short sequence of smaller image portions through reinforcement learning; the reward function penalises the exploration of areas, within an image, that are unlikely to contain nodules. Using a repository of over 430,000 historical chest radiographs, we present and discuss the proposed methods over related architectures that use either weakly-labelled or annotated images only. Convolutional neural networks (CNNs) have shown great performance as general feature representations for object recognition applications. However, for multi-label images that contain multiple objects from different categories, scales and locations, global CNN features are not optimal. In this paper, we incorporate local information to enhance the feature discriminative power. In particular, we first extract object proposals from each image. With each image treated as a bag and object proposals extracted from it treated as instances, we transform the multi-label recognition problem into a multi-class multi-instance learning problem. Then, in addition to extracting the typical CNN feature representation from each proposal, we propose to make use of ground-truth bounding box annotations (strong labels) to add another level of local information by using nearest-neighbor relationships of local regions to form a multi-view pipeline. The proposed multi-view multiinstance framework utilizes both weak and strong labels effectively, and more importantly it has the generalization ability to even boost the performance of unseen categories by partial strong labels from other categories. Our framework is extensively compared with state-of-the-art handcrafted feature based methods and CNN based methods on two multi-label benchmark datasets. The experimental results validate the discriminative power and the generalization ability of the proposed framework. With strong labels, our framework is able to achieve state-of-the-art results in both datasets. Deep convolution neural networks (CNN) have demonstrated advanced performance on single-label image classification, and various progress also have been made to apply CNN methods on multi-label image classification, which requires to annotate objects, attributes, scene categories etc. in a single shot. Recent state-of-the-art approaches to multi-label image classification exploit the label dependencies in an image, at global level, largely improving the labeling capacity. However, predicting small objects and visual concepts is still challenging due to the limited discrimination of the global visual features. In this paper, we propose a Regional Latent Semantic Dependencies model (RLSD) to address this problem. The utilized model includes a fully convolutional localization architecture to localize the regions that may contain multiple highly-dependent labels. The localized regions are further sent to the recurrent neural networks (RNN) to characterize the latent semantic dependencies at the regional level. Experimental results on several benchmark datasets show that our proposed model achieves the best performance compared to the state-of-the-art models, especially for predicting small objects occurred in the images. In addition, we set up an upper bound model (RLSD+ft-RPN) using bounding box coordinates during training, the experimental results also show that our RLSD can approach the upper bound without using the bounding-box annotations, which is more realistic in the real world. We aim to apply sparse autoencoder-based unsupervised feature learning to emotional semantic analysis for textile images. To tackle the problem of limited training data, we present a cross-domain feature learning scheme for emotional textile image classification using convolutional autoencoders. We further propose a correlation-analysis-based feature selection method for the weights learned by sparse autoencoders to reduce the number of features extracted from large size images. First, we randomly collect image patches on an unlabeled image dataset in the source domain and learn local features with a sparse autoencoder. We then conduct feature selection according to the correlation between different weight vectors corresponding to the autoencoder’s hidden units. We finally adopt a convolutional neural network including a pooling layer to obtain global feature activations of textile images in the target domain and send these global feature vectors into logistic regression models for emotional image classification. The cross-domain unsupervised feature learning method achieves 65 to 78 average accuracy in the cross-validation experiments corresponding to eight emotional categories and performs better than conventional methods. Feature selection can reduce the computational cost of global feature extraction by about 50 while improving classification performance. Deep convolution neural networks (CNNs) have demonstrated advanced performance on single-label image classification, and various progress also has been made to apply CNN methods on multilabel image classification, which requires annotating objects, attributes, scene categories, etc., in a single shot. Recent state-of-the-art approaches to the multilabel image classification exploit the label dependencies in an image, at the global level, largely improving the labeling capacity. However, predicting small objects and visual concepts is still challenging due to the limited discrimination of the global visual features. In this paper, we propose a regional latent semantic dependencies model (RLSD) to address this problem. The utilized model includes a fully convolutional localization architecture to localize the regions that may contain multiple highly dependent labels. The localized regions are further sent to the recurrent neural networks to characterize the latent semantic dependencies at the regional level. Experimental results on several benchmark datasets show that our proposed model achieves the best performance compared to the state-of-the-art models, especially for predicting small objects occurring in the images. Also, we set up an upper bound model (RLSD+ft-RPN) using bounding-box coordinates during training, and the experimental results also show that our RLSD can approach the upper bound without using the bounding-box annotations, which is more realistic in the real world. Diagnostic imaging often requires the simultaneous identification of a multitude of findings of varied size and appearance. Beyond global indication of said findings, the prediction and display of localization information improves trust in and understanding of results when augmenting clinical workflow. Medical training data rarely includes more than global image-level labels as segmentations are time-consuming and expensive to collect. We introduce an approach to managing these practical constraints by applying a novel architecture which learns at multiple resolutions while generating saliency maps with weak supervision. Further, we parameterize the Log-Sum-Exp pooling function with a learnable lower-bounded adaptation (LSE-LBA) to build in a sharpness prior and better handle localizing abnormalities of different sizes using only image-level labels. Applying this approach to interpreting chest x-rays, we set the state of the art on 9 abnormalities in the NIH's CXR14 dataset while generating saliency maps with the highest resolution to date. Importance Application of deep learning algorithms to whole-slide pathology images can potentially improve diagnostic accuracy and efficiency. Objective Assess the performance of automated deep learning algorithms at detecting metastases in hematoxylin and eosin–stained tissue sections of lymph nodes of women with breast cancer and compare it with pathologists’ diagnoses in a diagnostic setting. Design, Setting, and Participants Researcher challenge competition (CAMELYON16) to develop automated solutions for detecting lymph node metastases (November 2015-November 2016). A training data set of whole-slide images from 2 centers in the Netherlands with (n = 110) and without (n = 160) nodal metastases verified by immunohistochemical staining were provided to challenge participants to build algorithms. Algorithm performance was evaluated in an independent test set of 129 whole-slide images (49 with and 80 without metastases). The same test set of corresponding glass slides was also evaluated by a panel of 11 pathologists with time constraint (WTC) from the Netherlands to ascertain likelihood of nodal metastases for each slide in a flexible 2-hour session, simulating routine pathology workflow, and by 1 pathologist without time constraint (WOTC). Exposures Deep learning algorithms submitted as part of a challenge competition or pathologist interpretation. Main Outcomes and Measures The presence of specific metastatic foci and the absence vs presence of lymph node metastasis in a slide or image using receiver operating characteristic curve analysis. The 11 pathologists participating in the simulation exercise rated their diagnostic confidence as definitely normal, probably normal, equivocal, probably tumor, or definitely tumor. Results The area under the receiver operating characteristic curve (AUC) for the algorithms ranged from 0.556 to 0.994. The top-performing algorithm achieved a lesion-level, true-positive fraction comparable with that of the pathologist WOTC (72.4 [95 CI, 64.3 -80.4 ]) at a mean of 0.0125 false-positives per normal whole-slide image. For the whole-slide image classification task, the best algorithm (AUC, 0.994 [95 CI, 0.983-0.999]) performed significantly better than the pathologists WTC in a diagnostic simulation (mean AUC, 0.810 [range, 0.738-0.884]; P Conclusions and Relevance In the setting of a challenge competition, some deep learning algorithms achieved better diagnostic performance than a panel of 11 pathologists participating in a simulation exercise designed to mimic routine pathology workflow; algorithm performance was comparable with an expert pathologist interpreting whole-slide images without time constraints. Whether this approach has clinical utility will require evaluation in a clinical setting. We propose a technique for producing "visual explanations" for decisions from a large class of CNN-based models, making them more transparent. Our approach - Gradient-weighted Class Activation Mapping (Grad-CAM), uses the gradients of any target concept, flowing into the final convolutional layer to produce a coarse localization map highlighting the important regions in the image for predicting the concept. Unlike previous approaches, GradCAM is applicable to a wide variety of CNN model-families: (1) CNNs with fully-connected layers (e.g. VGG), (2) CNNs used for structured outputs (e.g. captioning), (3) CNNs used in tasks with multimodal inputs (e.g. VQA) or reinforcement learning, without any architectural changes or re-training. We combine GradCAM with fine-grained visualizations to create a high-resolution class-discriminative visualization and apply it to off-the-shelf image classification, captioning, and visual question answering (VQA) models, including ResNet-based architectures. In the context of image classification models, our visualizations (a) lend insights into their failure modes (showing that seemingly unreasonable predictions have reasonable explanations), (b) are robust to adversarial images, (c) outperform previous methods on weakly-supervised localization, (d) are more faithful to the underlying model and (e) help achieve generalization by identifying dataset bias. For captioning and VQA, our visualizations show that even non-attention based models can localize inputs. Finally, we conduct human studies to measure if GradCAM explanations help users establish trust in predictions from deep networks and show that GradCAM helps untrained users successfully discern a "stronger" deep network from a "weaker" one. Our code is available at this https URL A demo and a video of the demo can be found at this http URL and youtu.be COjUB9Izk6E. In this paper, we address the problems of contour detection, bottom-up grouping, object detection and semantic segmentation on RGB-D data. We focus on the challenging setting of cluttered indoor scenes, and evaluate our approach on the recently introduced NYU-Depth V2 (NYUD2) dataset (, ECCV, 2012). We propose algorithms for object boundary detection and hierarchical segmentation that generalize the @math gPb-ucm approach of (TPAMI, 2011) by making effective use of depth information. We show that our system can label each contour with its type (depth, normal or albedo). We also propose a generic method for long-range amodal completion of surfaces and show its effectiveness in grouping. We train RGB-D object detectors by analyzing and computing histogram of oriented gradients on the depth image and using them with deformable part models (, TPAMI, 2010). We observe that this simple strategy for training object detectors significantly outperforms more complicated models in the literature. We then turn to the problem of semantic segmentation for which we propose an approach that classifies superpixels into the dominant object categories in the NYUD2 dataset. We design generic and class-specific features to encode the appearance and geometry of objects. We also show that additional features computed from RGB-D object detectors and scene classifiers further improves semantic segmentation accuracy. In all of these tasks, we report significant improvements over the state-of-the-art. Convolutional networks (ConvNets) have achieved great successes in various challenging vision tasks. However, the performance of ConvNets would degrade when encountering the domain shift. The domain adaptation is more significant while challenging in the field of biomedical image analysis, where cross-modality data have largely different distributions. Given that annotating the medical data is especially expensive, the supervised transfer learning approaches are not quite optimal. In this paper, we propose an unsupervised domain adaptation framework with adversarial learning for cross-modality biomedical image segmentations. Specifically, our model is based on a dilated fully convolutional network for pixel-wise prediction. Moreover, we build a plug-and-play domain adaptation module (DAM) to map the target input to features which are aligned with source domain feature space. A domain critic module (DCM) is set up for discriminating the feature space of both domains. We optimize the DAM and DCM via an adversarial loss without using any target domain label. Our proposed method is validated by adapting a ConvNet trained with MRI images to unpaired CT data for cardiac structures segmentations, and achieved very promising results. We present a novel single-shot text detector that directly outputs word-level bounding boxes in a natural image. We propose an attention mechanism which roughly identifies text regions via an automatically learned attentional map. This substantially suppresses background interference in the convolutional features, which is the key to producing accurate inference of words, particularly at extremely small sizes. This results in a single model that essentially works in a coarse-to-fine manner. It departs from recent FCN-based text detectors which cascade multiple FCN models to achieve an accurate prediction. Furthermore, we develop a hierarchical inception module which efficiently aggregates multi-scale inception features. This enhances local details, and also encodes strong context information, allowing the detector to work reliably on multi-scale and multi-orientation text with single-scale images. Our text detector achieves an F-measure of 77 on the ICDAR 2015 benchmark, advancing the state-of-the-art results in [18, 28]. Demo is available at: http: sstd.whuang.org .