pwc-archive/papers-with-abstracts huggingface dataset:
SAR: Scale-Aware Restoration Learning for 3D Tumor Segmentation
Authors: Xiaoman Zhang, Shixiang Feng, YuHang Zhou, Ya zhang, Yanfeng Wang
Date: 2020-10-13 00:00:00
Tasks: Brain Tumor Segmentation, Segmentation, Self-Supervised Learning, Transfer Learning, Tumor Segmentation

Automatic and accurate tumor segmentation on medical images is in high demand to assist physicians with diagnosis and treatment. However, it is difficult to obtain massive amounts of annotated training data required by the deep-learning models as the manual delineation process is often tedious and expertise required. Although self-supervised learning (SSL) scheme has been widely adopted to address this problem, most SSL methods focus only on global structure information, ignoring the key distinguishing features of tumor regions: local intensity variation and large size distribution. In this paper, we propose Scale-Aware Restoration (SAR), a SSL method for 3D tumor segmentation. Specifically, a novel proxy task, i.e. scale discrimination, is formulated to pre-train the 3D neural network combined with the self-restoration task. Thus, the pre-trained model learns multi-level local representations through multi-scale inputs. Moreover, an adversarial learning module is further introduced to learn modality invariant representations from multiple unlabeled source datasets. We demonstrate the effectiveness of our methods on two downstream tasks: i) Brain tumor segmentation, ii) Pancreas tumor segmentation. Compared with the state-of-the-art 3D SSL methods, our proposed approach can significantly improve the segmentation accuracy. Besides, we analyze its advantages from multiple perspectives such as data efficiency, performance, and convergence speed.
Machine learning for the diagnosis of Parkinson's disease: A systematic review
Authors: Jie Mei, Christian Desrosiers, Johannes Frasnelli
Date: 2020-10-13 00:00:00
Tasks: BIG-bench Machine Learning, Decision Making, Diagnostic, Systematic Literature Review

Diagnosis of Parkinson's disease (PD) is commonly based on medical observations and assessment of clinical signs, including the characterization of a variety of motor symptoms. However, traditional diagnostic approaches may suffer from subjectivity as they rely on the evaluation of movements that are sometimes subtle to human eyes and therefore difficult to classify, leading to possible misclassification. In the meantime, early non-motor symptoms of PD may be mild and can be caused by many other conditions. Therefore, these symptoms are often overlooked, making diagnosis of PD at an early stage challenging. To address these difficulties and to refine the diagnosis and assessment procedures of PD, machine learning methods have been implemented for the classification of PD and healthy controls or patients with similar clinical presentations (e.g., movement disorders or other Parkinsonian syndromes). To provide a comprehensive overview of data modalities and machine learning methods that have been used in the diagnosis and differential diagnosis of PD, in this study, we conducted a systematic literature review of studies published until February 14, 2020, using the PubMed and IEEE Xplore databases. A total of 209 studies were included, extracted for relevant information and presented in this systematic review, with an investigation of their aims, sources of data, types of data, machine learning methods and associated outcomes. These studies demonstrate a high potential for adaptation of machine learning methods and novel biomarkers in clinical decision making, leading to increasingly systematic, informed diagnosis of PD.
Invariant Representation Learning for Infant Pose Estimation with Small Data
Authors: Xiaofei Huang, Nihang Fu, Shuangjun Liu, Sarah Ostadabbas
Date: 2020-10-13 00:00:00
Tasks: Domain Adaptation, Pose Estimation, Representation Learning

Infant motion analysis is a topic with critical importance in early childhood development studies. However, while the applications of human pose estimation have become more and more broad, models trained on large-scale adult pose datasets are barely successful in estimating infant poses due to the significant differences in their body ratio and the versatility of their poses. Moreover, the privacy and security considerations hinder the availability of adequate infant pose data required for training of a robust model from scratch. To address this problem, this paper presents (1) building and publicly releasing a hybrid synthetic and real infant pose (SyRIP) dataset with small yet diverse real infant images as well as generated synthetic infant poses and (2) a multi-stage invariant representation learning strategy that could transfer the knowledge from the adjacent domains of adult poses and synthetic infant images into our fine-tuned domain-adapted infant pose (FiDIP) estimation model. In our ablation study, with identical network structure, models trained on SyRIP dataset show noticeable improvement over the ones trained on the only other public infant pose datasets. Integrated with pose estimation backbone networks with varying complexity, FiDIP performs consistently better than the fine-tuned versions of those models. One of our best infant pose estimation performers on the state-of-the-art DarkPose model shows mean average precision (mAP) of 93.6.
Similarity Based Stratified Splitting: an approach to train better classifiers
Authors: Felipe Farias, Teresa Ludermir, Carmelo Bastos-Filho
Date: 2020-10-13 00:00:00

We propose a Similarity-Based Stratified Splitting (SBSS) technique, which uses both the output and input space information to split the data. The splits are generated using similarity functions among samples to place similar samples in different splits. This approach allows for a better representation of the data in the training phase. This strategy leads to a more realistic performance estimation when used in real-world applications. We evaluate our proposal in twenty-two benchmark datasets with classifiers such as Multi-Layer Perceptron, Support Vector Machine, Random Forest and K-Nearest Neighbors, and five similarity functions Cityblock, Chebyshev, Cosine, Correlation, and Euclidean. According to the Wilcoxon Sign-Rank test, our approach consistently outperformed ordinary stratified 10-fold cross-validation in 75\% of the assessed scenarios.
Gradient Descent Ascent for Minimax Problems on Riemannian Manifolds
Authors: Feihu Huang, Shangqian Gao
Date: 2020-10-13 00:00:00

In the paper, we study a class of useful minimax problems on Riemanian manifolds and propose a class of effective Riemanian gradient-based methods to solve these minimax problems. Specifically, we propose an effective Riemannian gradient descent ascent (RGDA) algorithm for the deterministic minimax optimization. Moreover, we prove that our RGDA has a sample complexity of $O(\kappa^2\epsilon^{-2})$ for finding an $\epsilon$-stationary solution of the Geodesically-Nonconvex Strongly-Concave (GNSC) minimax problems, where $\kappa$ denotes the condition number. At the same time, we present an effective Riemannian stochastic gradient descent ascent (RSGDA) algorithm for the stochastic minimax optimization, which has a sample complexity of $O(\kappa^4\epsilon^{-4})$ for finding an $\epsilon$-stationary solution. To further reduce the sample complexity, we propose an accelerated Riemannian stochastic gradient descent ascent (Acc-RSGDA) algorithm based on the momentum-based variance-reduced technique. We prove that our Acc-RSGDA algorithm achieves a lower sample complexity of $\tilde{O}(\kappa^{4}\epsilon^{-3})$ in searching for an $\epsilon$-stationary solution of the GNSC minimax problems. Extensive experimental results on the robust distributional optimization and robust Deep Neural Networks (DNNs) training over Stiefel manifold demonstrate efficiency of our algorithms.
Attn-HybridNet: Improving Discriminability of Hybrid Features with Attention Fusion
Authors: Sunny Verma, Chen Wang, Liming Zhu, Wei Liu
Date: 2020-10-13 00:00:00

The principal component analysis network (PCANet) is an unsupervised parsimonious deep network, utilizing principal components as filters in its convolution layers. Albeit powerful, the PCANet consists of basic operations such as principal components and spatial pooling, which suffers from two fundamental problems. First, the principal components obtain information by transforming it to column vectors (which we call the amalgamated view), which incurs the loss of the spatial information in the data. Second, the generalized spatial pooling utilized in the PCANet induces feature redundancy and also fails to accommodate spatial statistics of natural images. In this research, we first propose a tensor-factorization based deep network called the Tensor Factorization Network (TFNet). The TFNet extracts features from the spatial structure of the data (which we call the minutiae view). We then show that the information obtained by the PCANet and the TFNet are distinctive and non-trivial but individually insufficient. This phenomenon necessitates the development of proposed HybridNet, which integrates the information discovery with the two views of the data. To enhance the discriminability of hybrid features, we propose Attn-HybridNet, which alleviates the feature redundancy by performing attention-based feature fusion. The significance of our proposed Attn-HybridNet is demonstrated on multiple real-world datasets where the features obtained with Attn-HybridNet achieves better classification performance over other popular baseline methods, demonstrating the effectiveness of the proposed technique.
Contrast and Classify: Training Robust VQA Models
Authors: Yash Kant, Abhinav Moudgil, Dhruv Batra, Devi Parikh, Harsh Agrawal
Date: 2020-10-13 00:00:00
Proceeding: ICCV 2021 10
Tasks: Contrastive Learning, Data Augmentation, Question Answering, Question Generation, Question-Generation, Visual Question Answering, Visual Question Answering (VQA)

Recent Visual Question Answering (VQA) models have shown impressive performance on the VQA benchmark but remain sensitive to small linguistic variations in input questions. Existing approaches address this by augmenting the dataset with question paraphrases from visual question generation models or adversarial perturbations. These approaches use the combined data to learn an answer classifier by minimizing the standard cross-entropy loss. To more effectively leverage augmented data, we build on the recent success in contrastive learning. We propose a novel training paradigm (ConClaT) that optimizes both cross-entropy and contrastive losses. The contrastive loss encourages representations to be robust to linguistic variations in questions while the cross-entropy loss preserves the discriminative power of representations for answer prediction. We find that optimizing both losses -- either alternately or jointly -- is key to effective training. On the VQA-Rephrasings benchmark, which measures the VQA model's answer consistency across human paraphrases of a question, ConClaT improves Consensus Score by 1 .63% over an improved baseline. In addition, on the standard VQA 2.0 benchmark, we improve the VQA accuracy by 0.78% overall. We also show that ConClaT is agnostic to the type of data-augmentation strategy used.
Accelerating the Development of Multimodal, Integrative-AI Systems with Platform for Situated Intelligence
Authors: Sean Andrist, Dan Bohus
Date: 2020-10-12 00:00:00

We describe Platform for Situated Intelligence, an open-source framework for multimodal, integrative-AI systems. The framework provides infrastructure, tools, and components that enable and accelerate the development of applications that process multimodal streams of data and in which timing is critical. The framework is particularly well-suited for developing physically situated interactive systems that perceive and reason about their surroundings in order to better interact with people, such as social robots, virtual assistants, smart meeting rooms, etc. In this paper, we provide a brief, high-level overview of the framework and its main affordances, and discuss its implications for HRI.
Trace Reconstruction Problems in Computational Biology
Authors: Vinnu Bhardwaj, Pavel A. Pevzner, Cyrus Rashtchian, Yana Safonova
Date: 2020-10-12 00:00:00
Tasks: Retrieval

The problem of reconstructing a string from its error-prone copies, the trace reconstruction problem, was introduced by Vladimir Levenshtein two decades ago. While there has been considerable theoretical work on trace reconstruction, practical solutions have only recently started to emerge in the context of two rapidly developing research areas: immunogenomics and DNA data storage. In immunogenomics, traces correspond to mutated copies of genes, with mutations generated naturally by the adaptive immune system. In DNA data storage, traces correspond to noisy copies of DNA molecules that encode digital data, with errors being artifacts of the data retrieval process. In this paper, we introduce several new trace generation models and open questions relevant to trace reconstruction for immunogenomics and DNA data storage, survey theoretical results on trace reconstruction, and highlight their connections to computational biology. Throughout, we discuss the applicability and shortcomings of known solutions and suggest future research directions.
Oort: Efficient Federated Learning via Guided Participant Selection
Authors: Fan Lai, Xiangfeng Zhu, Harsha V. Madhyastha, Mosharaf Chowdhury
Date: 2020-10-12 00:00:00
Tasks: Federated Learning

Federated Learning (FL) is an emerging direction in distributed machine learning (ML) that enables in-situ model training and testing on edge data. Despite having the same end goals as traditional ML, FL executions differ significantly in scale, spanning thousands to millions of participating devices. As a result, data characteristics and device capabilities vary widely across clients. Yet, existing efforts randomly select FL participants, which leads to poor model and system efficiency. In this paper, we propose Oort to improve the performance of federated training and testing with guided participant selection. With an aim to improve time-to-accuracy performance in model training, Oort prioritizes the use of those clients who have both data that offers the greatest utility in improving model accuracy and the capability to run training quickly. To enable FL developers to interpret their results in model testing, Oort enforces their requirements on the distribution of participant data while improving the duration of federated testing by cherry-picking clients. Our evaluation shows that, compared to existing participant selection mechanisms, Oort improves time-to-accuracy performance by 1.2x-14.1x and final model accuracy by 1.3%-9.8%, while efficiently enforcing developer-specified model testing criteria at the scale of millions of clients.
Point Process Modeling of Drug Overdoses with Heterogeneous and Missing Data
Authors: Xueying Liu, Jeremy Carter, Brad Ray, George Mohler
Date: 2020-10-12 00:00:00
Tasks: Clustering, Point Processes

Opioid overdose rates have increased in the United States over the past decade and reflect a major public health crisis. Modeling and prediction of drug and opioid hotspots, where a high percentage of events fall in a small percentage of space-time, could help better focus limited social and health services. In this work we present a spatial-temporal point process model for drug overdose clustering. The data input into the model comes from two heterogeneous sources: 1) high volume emergency medical calls for service (EMS) records containing location and time, but no information on the type of non-fatal overdose and 2) fatal overdose toxicology reports from the coroner containing location and high-dimensional information from the toxicology screen on the drugs present at the time of death. We first use non-negative matrix factorization to cluster toxicology reports into drug overdose categories and we then develop an EM algorithm for integrating the two heterogeneous data sets, where the mark corresponding to overdose category is inferred for the EMS data and the high volume EMS data is used to more accurately predict drug overdose death hotspots. We apply the algorithm to drug overdose data from Indianapolis, showing that the point process defined on the integrated data outperforms point processes that use only homogeneous EMS (AUC improvement .72 to .8) or coroner data (AUC improvement .81 to .85).We also investigate the extent to which overdoses are contagious, as a function of the type of overdose, while controlling for exogenous fluctuations in the background rate that might also contribute to clustering. We find that drug and opioid overdose deaths exhibit significant excitation, with branching ratio ranging from .72 to .98.
An Information-Theoretic Perspective on Overfitting and Underfitting
Authors: Daniel Bashir, George D. Montanez, Sonia Sehra, Pedro Sandoval Segura, Julius Lauw
Date: 2020-10-12 00:00:00
Tasks: BIG-bench Machine Learning

We present an information-theoretic framework for understanding overfitting and underfitting in machine learning and prove the formal undecidability of determining whether an arbitrary classification algorithm will overfit a dataset. Measuring algorithm capacity via the information transferred from datasets to models, we consider mismatches between algorithm capacities and datasets to provide a signature for when a model can overfit or underfit a dataset. We present results upper-bounding algorithm capacity, establish its relationship to quantities in the algorithmic search framework for machine learning, and relate our work to recent information-theoretic approaches to generalization.
A catalog of broad morphology of Pan-STARRS galaxies based on deep learning
Authors: Hunter Goddard, Lior Shamir
Date: 2020-10-12 00:00:00

Autonomous digital sky surveys such as Pan-STARRS have the ability to image a very large number of galactic and extra-galactic objects, and the large and complex nature of the image data reinforces the use of automation. Here we describe the design and implementation of a data analysis process for automatic broad morphology annotation of galaxies, and applied it to the data of Pan-STARRS DR1. The process is based on filters followed by a two-step convolutional neural network (CNN) classification. Training samples are generated by using an augmented and balanced set of manually classified galaxies. Results are evaluated for accuracy by comparison to the annotation of Pan-STARRS included in a previous broad morphology catalog of SDSS galaxies. Our analysis shows that a CNN combined with several filters is an effective approach for annotating the galaxies and removing unclean images. The catalog contains morphology labels for 1,662,190 galaxies with ~95% accuracy. The accuracy can be further improved by selecting labels above certain confidence thresholds. The catalog is publicly available.
Neural Representations in Hybrid Recommender Systems: Prediction versus Regularization
Authors: Ramin Raziperchikolaei, Tianyu Li, Young-joo Chung
Date: 2020-10-12 00:00:00
Tasks: Prediction, Recommendation Systems

Autoencoder-based hybrid recommender systems have become popular recently because of their ability to learn user and item representations by reconstructing various information sources, including users' feedback on items (e.g., ratings) and side information of users and items (e.g., users' occupation and items' title). However, existing systems still use representations learned by matrix factorization (MF) to predict the rating, while using representations learned by neural networks as the regularizer. In this paper, we define the neural representation for prediction (NRP) framework and apply it to the autoencoder-based recommendation systems. We theoretically analyze how our objective function is related to the previous MF and autoencoder-based methods and explain what it means to use neural representations as the regularizer. We also apply the NRP framework to a direct neural network structure which predicts the ratings without reconstructing the user and item information. We conduct extensive experiments on two MovieLens datasets and two real-world e-commerce datasets. The results confirm that neural representations are better for prediction than regularization and show that the NRP framework, combined with the direct neural network structure, outperforms the state-of-the-art methods in the prediction task, with less training time and memory.
Zero-shot Entity Linking with Efficient Long Range Sequence Modeling
Authors: Zonghai Yao, Liangliang Cao, Huapu Pan
Date: 2020-10-12 00:00:00
Proceeding: Findings of the Association for Computational Linguistics 2020
Tasks: Entity Linking, Position

This paper considers the problem of zero-shot entity linking, in which a link in the test time may not present in training. Following the prevailing BERT-based research efforts, we find a simple yet effective way is to expand the long-range sequence modeling. Unlike many previous methods, our method does not require expensive pre-training of BERT with long position embedding. Instead, we propose an efficient position embeddings initialization method called Embedding-repeat, which initializes larger position embeddings based on BERT-Base. On Wikia's zero-shot EL dataset, our method improves the SOTA from 76.06% to 79.08%, and for its long data, the corresponding improvement is from 74.57% to 82.14%. Our experiments suggest the effectiveness of long-range sequence modeling without retraining the BERT model.
BioMegatron: Larger Biomedical Domain Language Model
Authors: Hoo-chang Shin, Yang Zhang, Evelina Bakhturina, Raul Puri, Mostofa Patwary, Mohammad Shoeybi, Raghav Mani
Date: 2020-10-12 00:00:00
Proceeding: EMNLP 2020 11
Tasks: Language Modeling, Language Modelling, model, named-entity-recognition, Named Entity Recognition, Named Entity Recognition (NER), Question Answering, Relation Extraction

There has been an influx of biomedical domain-specific language models, showing language models pre-trained on biomedical text perform better on biomedical domain benchmarks than those trained on general domain text corpora such as Wikipedia and Books. Yet, most works do not study the factors affecting each domain language application deeply. Additionally, the study of model size on domain-specific models has been mostly missing. We empirically study and evaluate several factors that can affect performance on domain language applications, such as the sub-word vocabulary set, model size, pre-training corpus, and domain transfer. We show consistent improvements on benchmarks with our larger BioMegatron model trained on a larger domain corpus, contributing to our understanding of domain language model applications. We demonstrate noticeable improvements over the previous state-of-the-art (SOTA) on standard biomedical NLP benchmarks of named entity recognition, relation extraction, and question answering. Model checkpoints and code are available at [https://ngc.nvidia.com] and [https://github.com/NVIDIA/NeMo].
A Framework for Addressing the Risks and Opportunities In AI-Supported Virtual Health Coaches
Authors: Sonia Baee, Mark Rucker, Anna Baglione, Mawulolo K. Ameko, Laura Barnes
Date: 2020-10-12 00:00:00
Tasks: Ethics, Fairness

Virtual coaching has rapidly evolved into a foundational component of modern clinical practice. At a time when healthcare professionals are in short supply and the demand for low-cost treatments is ever-increasing, virtual health coaches (VHCs) offer intervention-on-demand for those limited by finances or geographic access to care. More recently, AI-powered virtual coaches have become a viable complement to human coaches. However, the push for AI-powered coaching systems raises several important issues for researchers, designers, clinicians, and patients. In this paper, we present a novel framework to guide the design and development of virtual coaching systems. This framework augments a traditional data science pipeline with four key guiding goals: reliability, fairness, engagement, and ethics.