Multi-Grained Named Entity Recognition

This paper presents a novel framework, MGNER, for Multi-Grained Named Entity Recognition where multiple entities or entity mentions in a sentence could be non-overlapping or totally nested. Different from traditional approaches regarding NER as a sequential labeling task and annotate entities consecutively, MGNER detects and recognizes entities on multiple granularities: it is able to recognize named entities without explicitly assuming non-overlapping or totally nested structures. MGNER consists of a Detector that examines all possible word segments and a Classifier that categorizes entities. In addition, contextual information and a self-attention mechanism are utilized throughout the framework to improve the NER performance. Experimental results show that MGNER outperforms current state-of-the-art baselines up to 4.4% in terms of the F1 score among nested/non-overlapping NER tasks.

Neural Multi-Scale Self-Supervised Registration for Echocardiogram Dense Tracking

Echocardiography has become routinely used in the diagnosis of cardiomyopathy and abnormal cardiac blood flow. However, manually measuring myocardial motion and cardiac blood flow from echocardiogram is time-consuming and error-prone. Computer algorithms that can automatically track and quantify myocardial motion and cardiac blood flow are highly sought after, but have not been very successful due to noise and high variability of echocardiography. In this work, we propose a neural multi-scale self-supervised registration (NMSR) method for automated myocardial and cardiac blood flow dense tracking. NMSR incorporates two novel components: 1) utilizing a deep neural net to parameterize the velocity field between two image frames, and 2) optimizing the parameters of the neural net in a sequential multi-scale fashion to account for large variations within the velocity field. Experiments demonstrate that NMSR yields significantly better registration accuracy than state-of-the-art methods, such as advanced normalization tools (ANTs) and VoxelMorph, for both myocardial and cardiac blood flow dense tracking. Our approach promises to provide a fully automated method for fast and accurate analyses of echocardiograms.

SynonymNet: Multi-context Bilateral Matching for Entity Synonyms

Being able to automatically discover synonymous entities from a large free-text corpus has transformative effects on structured knowledge discovery. Existing works either require structured annotations, or fail to incorporate context information effectively, which lower the efficiency of information usage. In this paper, we propose a framework for synonym discovery from free-text corpus without structured annotation. As one of the key components in synonym discovery, we introduce a novel neural network model SynonymNet to determine whether or not two given entities are synonym with each other. Instead of using entities features, SynonymNet makes use of multiple pieces of contexts in which the entity is mentioned, and compares the context-level similarity via a bilateral matching schema to determine synonymity. Experimental results demonstrate that the proposed model achieves state-of-the-art results on both generic and domain-specific synonym datasets: Wiki+Freebase, PubMed+UMLS and MedBook+MKG, with up to 4.16% improvement in terms of Area Under the Curve (AUC) and 3.19% in terms of Mean Average Precision (MAP) compare to the best baseline method.

Joint Slot Filling and Intent Detection via Capsule Neural Networks

Being able to recognize words as slots and detect the intent of an utterance has been a keen issue in natural language understanding. The existing works either treat slot filling and intent detection separately in a pipeline manner, or adopt joint models which sequentially label slots while summarizing the utterance-level intent without explicitly preserving the hierarchical relationship among words, slots, and intents. To exploit the semantic hierarchy for effective modeling, we propose a capsule-based neural network model which accomplishes slot filling and intent detection via a dynamic routing-by-agreement schema. A re-routing schema is proposed to further synergize the slot filling performance using the inferred intent representation. Experiments on two real-world datasets show the effectiveness of our model when compared with other alternative model architectures, as well as existing natural language understanding services.

Multi-Task Learning with Multi-View Attention for Answer Selection and Knowledge Base Question Answering

Answer selection and knowledge base question answering (KBQA) are two important tasks of question answering (QA) systems. Existing methods solve these two tasks separately, which requires large number of repetitive work and neglects the rich correlation information between tasks. In this paper, we tackle answer selection and KBQA tasks simultaneously via multi-task learning (MTL), motivated by the following motivations. First, both answer selection and KBQA can be regarded as a ranking problem, with one at text-level while the other at knowledge-level. Second, these two tasks can benefit each other: answer selection can incorporate the external knowledge from knowledge base (KB), while KBQA can be improved by learning contextual information from answer selection. To fulfill the goal of jointly learning these two tasks, we propose a novel multi-task learning scheme that utilizes multi-view attention learned from various perspectives to enable these tasks to interact with each other as well as learn more comprehensive sentence representations. The experiments conducted on several real-world datasets demonstrate the effectiveness of the proposed method, and the performance of answer selection and KBQA is improved. Also, the multi-view attention scheme is proved to be effective in assembling attentive information from different representational perspectives.

Generating Realistic Training Images Based on Tonality-Alignment Generative Adversarial Networks for Hand Pose Estimation

Hand pose estimation from a monocular RGB image is an important but challenging task. The main factor affecting its performance is the lack of a sufficiently large training dataset with accurate hand-keypoint annotations. In this work, we circumvent this problem by proposing an effective method for generating realistic hand poses and show that state-of-the-art algorithms for hand pose estimation can be greatly improved by utilizing the generated hand poses as training data. Specifically, we first adopt an augmented reality (AR) simulator to synthesize hand poses with accurate hand-keypoint labels. Although the synthetic hand poses come with precise joint labels, eliminating the need of manual annotations, they look unnatural and are not the ideal training data. To produce more realistic hand poses, we propose to blend a synthetic hand pose with a real background, such as arms and sleeves. To this end, we develop tonality-alignment generative adversarial networks (TAGANs), which align the tonality and color distributions between synthetic hand poses and real backgrounds, and can generate high quality hand poses. We evaluate TAGAN on three benchmarks, including the RHP, STB, and CMU-PS hand pose datasets. With the aid of the synthesized poses, our method performs favorably against the state-of-the-arts in both $2$D and $3$D hand pose estimations.

On the Generation of Medical Question-Answer Pairs

Question answering (QA) has achieved promising progress recently. However, answering a question in real-world scenarios like the medical domain is still challenging, due to the requirement of external knowledge and the insufficient of high-quality training data. In the light of these challenges, we study the task of generating medical QA pairs in this paper. With the insight that each medical question can be considered as a sample from the latent distribution conditioned on the corresponding answer, we propose an automated medical QA pair generation framework, consisting of an unsupervised key phrase detector that explores unstructured material for validity, and a generator that involves multi-pass decoder to integrate with structural knowledge for diversity. Series of experiments have been conducted on a real-world dataset collected from the National Medical Licensing Examination of China. Both automatic evaluation and human annotation demonstrate the effectiveness of the proposed method. Further investigation shows that, by incorporating the generated QA pairs for training, significant improvement in terms of accuracy can be achieved for the examination QA system.

Finding Similar Medical Questions from Question Answering Websites

The past few years have witnessed the flourishing of crowdsourced medical question answering (Q&A) websites. Patients who have medical information demands tend to post questions about their health conditions on these crowdsourced Q&A websites and get answers from other users. However, we observe that a large portion of new medical questions cannot be answered in time or receive only few answers from these websites. On the other hand, we notice that solved questions have great potential to solve this challenge. Motivated by these, we propose an end-to-end system that can automatically find similar questions for unsolved medical questions. By learning the vector presentation of unsolved questions and their candidate similar questions, the proposed system outputs similar questions according to the similarity between vector representations. Through the vector representation, the similar questions are found at the question level, and the diversity of medical questions expression issue can be addressed. Further, we handle two more important issues, i.e., training data generation issue and efficiency issue, associated with the LSTM training procedure and the retrieval of candidate similar questions. The effectiveness of the proposed system is validated on a large-scale real-world dataset collected from a crowdsourced maternal-infant Q&A website.

AnatomyNet: Deep 3D Squeeze-and-excitation U-Nets for fast and fully automated whole-volume anatomical segmentation

Radiation therapy (RT) is a common treatment for head and neck (HaN) cancer where therapists are often required to manually delineate boundaries of the organs-at-risks (OARs). Automated head and neck anatomical segmentation provides a way to speed up and improve the reproducibility of radiation therapy planning. In this work, we propose the AnatomyNet, an end-to-end and atlas-free three dimensional squeeze-and-excitation U-Net (3D SE U-Net), for fast and fully automated whole-volume HaN anatomical segmentation. There are two main challenges for fully automated HaN OARs segmentation: 1) challenge in segmenting small anatomies (i.e., optic chiasm and optic nerves) occupying only a few slices, and 2) training model with inconsistent data annotations with missing ground truth for some anatomical structures because of different RT planning. We propose the AnatomyNet that has one down-sampling layer with the trade-off between GPU memory and feature representation capacity, and 3D SE residual blocks for effective feature learning to alleviate these challenges. Moreover, we design a hybrid loss function with the Dice loss and the focal loss. The Dice loss is a class level distribution loss that depends less on the number of voxels in the anatomy, and the focal loss is designed to deal with highly unbalanced segmentation. For missing annotations, we propose masked loss and weighted loss for accurate and balanced weights updating in the learning of the AnatomyNet. We collect 261 HaN CT images to train the AnatomyNet for segmenting nine anatomies. Compared to previous state-of-the-art methods for each anatomy from the MICCAI 2015 competition, the AnatomyNet increases Dice similarity coefficient (DSC) by 3.3% on average. The proposed AnatomyNet takes only 0.12 seconds on average to segment a whole-volume HaN CT image of an average dimension of 178x302x225.

DeepLung: Deep 3D Dual Path Nets for Automated Pulmonary Nodule Detection and Classification

In this work, we present a fully automated lung computed tomography (CT) cancer diagnosis system, DeepLung. DeepLung consists of two components, nodule detection (identifying the locations of candidate nodules) and classification (classifying candidate nodules into benign or malignant). Considering the 3D nature of lung CT data and the compactness of dual path networks (DPN), two deep 3D DPN are designed for nodule detection and classification respectively. Specifically, a 3D Faster Regions with Convolutional Neural Net (R-CNN) is designed for nodule detection with 3D dual path blocks and a U-net-like encoder-decoder structure to effectively learn nodule features. For nodule classification, gradient boosting machine (GBM) with 3D dual path network features is proposed. The nodule classification subnetwork was validated on a public dataset from LIDC-IDRI, on which it achieved better performance than state-of-the-art approaches and surpassed the performance of experienced doctors based on image modality. Within the DeepLung system, candidate nodules are detected first by the nodule detection subnetwork, and nodule diagnosis is conducted by the classification subnetwork. Extensive experimental results demonstrate that DeepLung has performance comparable to experienced doctors both for the nodule-level and patient-level diagnosis on the LIDC-IDRI dataset.\footnote{https://github.com/uci-cbcl/DeepLung.git}