pwc-archive/papers-with-abstracts huggingface dataset:
Toward expanding the scope of radiology report summarization to multiple anatomies and modalities
Authors: Zhihong Chen, Maya Varma, Xiang Wan, Curtis Langlotz, Jean-Benoit Delbrouck
Date: 2022-11-15 00:00:00
Tasks: Anatomy

Radiology report summarization (RRS) is a growing area of research. Given the Findings section of a radiology report, the goal is to generate a summary (called an Impression section) that highlights the key observations and conclusions of the radiology study. However, RRS currently faces essential limitations.First, many prior studies conduct experiments on private datasets, preventing reproduction of results and fair comparisons across different systems and solutions. Second, most prior approaches are evaluated solely on chest X-rays. To address these limitations, we propose a dataset (MIMIC-RRS) involving three new modalities and seven new anatomies based on the MIMIC-III and MIMIC-CXR datasets. We then conduct extensive experiments to evaluate the performance of models both within and across modality-anatomy pairs in MIMIC-RRS. In addition, we evaluate their clinical efficacy via RadGraph, a factual correctness metric.
Realization of Causal Representation Learning to Adjust Confounding Bias in Latent Space
Authors: Jia Li, Xiang Li, Xiaowei Jia, Michael Steinbach, Vipin Kumar
Date: 2022-11-15 00:00:00
Tasks: Causal Inference, Representation Learning, Time Series

Causal DAGs(Directed Acyclic Graphs) are usually considered in a 2D plane. Edges indicate causal effects' directions and imply their corresponding time-passings. Due to the natural restriction of statistical models, effect estimation is usually approximated by averaging the individuals' correlations, i.e., observational changes over a specific time. However, in the context of Machine Learning on large-scale questions with complex DAGs, such slight biases can snowball to distort global models - More importantly, it has practically impeded the development of AI, for instance, the weak generalizability of causal models. In this paper, we redefine causal DAG as \emph{do-DAG}, in which variables' values are no longer time-stamp-dependent, and timelines can be seen as axes. By geometric explanation of multi-dimensional do-DAG, we identify the \emph{Causal Representation Bias} and its necessary factors, differentiated from common confounding biases. Accordingly, a DL(Deep Learning)-based framework will be proposed as the general solution, along with a realization method and experiments to verify its feasibility.
Bayesian Fixed-Budget Best-Arm Identification
Authors: Alexia Atsidakou, Sumeet Katariya, Sujay Sanghavi, Branislav Kveton
Date: 2022-11-15 00:00:00

Fixed-budget best-arm identification (BAI) is a bandit problem where the agent maximizes the probability of identifying the optimal arm within a fixed budget of observations. In this work, we study this problem in the Bayesian setting. We propose a Bayesian elimination algorithm and derive an upper bound on its probability of misidentifying the optimal arm. The bound reflects the quality of the prior and is the first distribution-dependent bound in this setting. We prove it using a frequentist-like argument, where we carry the prior through, and then integrate out the bandit instance at the end. We also provide a lower bound on the probability of misidentification in a $2$-armed Bayesian bandit and show that our upper bound (almost) matches it for any budget. Our experiments show that Bayesian elimination is superior to frequentist methods and competitive with the state-of-the-art Bayesian algorithms that have no guarantees in our setting.
Graph Sequential Neural ODE Process for Link Prediction on Dynamic and Sparse Graphs
Authors: Linhao Luo, Reza Haffari, Shirui Pan
Date: 2022-11-15 00:00:00
Tasks: Graph Mining, Link Prediction, Prediction

Link prediction on dynamic graphs is an important task in graph mining. Existing approaches based on dynamic graph neural networks (DGNNs) typically require a significant amount of historical data (interactions over time), which is not always available in practice. The missing links over time, which is a common phenomenon in graph data, further aggravates the issue and thus creates extremely sparse and dynamic graphs. To address this problem, we propose a novel method based on the neural process, called Graph Sequential Neural ODE Process (GSNOP). Specifically, GSNOP combines the advantage of the neural process and neural ordinary differential equation that models the link prediction on dynamic graphs as a dynamic-changing stochastic process. By defining a distribution over functions, GSNOP introduces the uncertainty into the predictions, making it generalize to more situations instead of overfitting to the sparse data. GSNOP is also agnostic to model structures that can be integrated with any DGNN to consider the chronological and geometrical information for link prediction. Extensive experiments on three dynamic graph datasets show that GSNOP can significantly improve the performance of existing DGNNs and outperform other neural process variants.
Behavior of Hyper-Parameters for Selected Machine Learning Algorithms: An Empirical Investigation
Authors: Anwesha Bhattacharyya, Joel Vaughan, Vijayan N. Nair
Date: 2022-11-15 00:00:00

Hyper-parameters (HPs) are an important part of machine learning (ML) model development and can greatly influence performance. This paper studies their behavior for three algorithms: Extreme Gradient Boosting (XGB), Random Forest (RF), and Feedforward Neural Network (FFNN) with structured data. Our empirical investigation examines the qualitative behavior of model performance as the HPs vary, quantifies the importance of each HP for different ML algorithms, and stability of the performance near the optimal region. Based on the findings, we propose a set of guidelines for efficient HP tuning by reducing the search space.
Decision-Aware Learning for Optimizing Health Supply Chains
Authors: Tsai-Hsuan Chung, Vahid Rostami, Hamsa Bastani, Osbert Bastani
Date: 2022-11-15 00:00:00

We study the problem of allocating limited supply of medical resources in developing countries, in particular, Sierra Leone. We address this problem by combining machine learning (to predict demand) with optimization (to optimize allocations). A key challenge is the need to align the loss function used to train the machine learning model with the decision loss associated with the downstream optimization problem. Traditional solutions have limited flexibility in the model architecture and scale poorly to large datasets. We propose a decision-aware learning algorithm that uses a novel Taylor expansion of the optimal decision loss to derive the machine learning loss. Importantly, our approach only requires a simple re-weighting of the training data, ensuring it is both flexible and scalable, e.g., we incorporate it into a random forest trained using a multitask learning framework. We apply our framework to optimize the distribution of essential medicines in collaboration with policymakers in Sierra Leone; highly uncertain demand and limited budgets currently result in excessive unmet demand. Out-of-sample results demonstrate that our end-to-end approach can significantly reduce unmet demand across 1040 health facilities throughout Sierra Leone.
ParticleGrid: Enabling Deep Learning using 3D Representation of Materials
Authors: Shehtab Zaman, Ethan Ferguson, Cecile Pereira, Denis Akhiyarov, Mauricio Araya-Polo, Kenneth Chiu
Date: 2022-11-15 00:00:00
Tasks: CPU, Deep Learning, GPU, Property Prediction

From AlexNet to Inception, autoencoders to diffusion models, the development of novel and powerful deep learning models and learning algorithms has proceeded at breakneck speeds. In part, we believe that rapid iteration of model architecture and learning techniques by a large community of researchers over a common representation of the underlying entities has resulted in transferable deep learning knowledge. As a result, model scale, accuracy, fidelity, and compute performance have dramatically increased in computer vision and natural language processing. On the other hand, the lack of a common representation for chemical structure has hampered similar progress. To enable transferable deep learning, we identify the need for a robust 3-dimensional representation of materials such as molecules and crystals. The goal is to enable both materials property prediction and materials generation with 3D structures. While computationally costly, such representations can model a large set of chemical structures. We propose $\textit{ParticleGrid}$, a SIMD-optimized library for 3D structures, that is designed for deep learning applications and to seamlessly integrate with deep learning frameworks. Our highly optimized grid generation allows for generating grids on the fly on the CPU, reducing storage and GPU compute and memory requirements. We show the efficacy of 3D grids generated via $\textit{ParticleGrid}$ and accurately predict molecular energy properties using a 3D convolutional neural network. Our model is able to get 0.006 mean square error and nearly match the values calculated using computationally costly density functional theory at a fraction of the time.
Probabilistic Querying of Continuous-Time Event Sequences
Authors: Alex Boyd, Yuxin Chang, Stephan Mandt, Padhraic Smyth
Date: 2022-11-15 00:00:00
Tasks: Vocal Bursts Type Prediction

Continuous-time event sequences, i.e., sequences consisting of continuous time stamps and associated event types ("marks"), are an important type of sequential data with many applications, e.g., in clinical medicine or user behavior modeling. Since these data are typically modeled autoregressively (e.g., using neural Hawkes processes or their classical counterparts), it is natural to ask questions about future scenarios such as "what kind of event will occur next" or "will an event of type $A$ occur before one of type $B$". Unfortunately, some of these queries are notoriously hard to address since current methods are limited to naive simulation, which can be highly inefficient. This paper introduces a new typology of query types and a framework for addressing them using importance sampling. Example queries include predicting the $n^\text{th}$ event type in a sequence and the hitting time distribution of one or more event types. We also leverage these findings further to be applicable for estimating general "$A$ before $B$" type of queries. We prove theoretically that our estimation method is effectively always better than naive simulation and show empirically based on three real-world datasets that it is on average 1,000 times more efficient than existing approaches.
On the Compositional Generalization Gap of In-Context Learning
Authors: Arian Hosseini, Ankit Vani, Dzmitry Bahdanau, Alessandro Sordoni, Aaron Courville
Date: 2022-11-15 00:00:00
Tasks: In-Context Learning, Semantic Parsing

Pretrained large generative language models have shown great performance on many tasks, but exhibit low compositional generalization abilities. Scaling such models has been shown to improve their performance on various NLP tasks even just by conditioning them on a few examples to solve the task without any fine-tuning (also known as in-context learning). In this work, we look at the gap between the in-distribution (ID) and out-of-distribution (OOD) performance of such models in semantic parsing tasks with in-context learning. In the ID settings, the demonstrations are from the same split (test or train) that the model is being evaluated on, and in the OOD settings, they are from the other split. We look at how the relative generalization gap of in-context learning evolves as models are scaled up. We evaluate four model families, OPT, BLOOM, CodeGen and Codex on three semantic parsing datasets, CFQ, SCAN and GeoQuery with different number of exemplars, and observe a trend of decreasing relative generalization gap as models are scaled up.
Improved techniques for deterministic l2 robustness
Authors: Sahil Singla, Soheil Feizi
Date: 2022-11-15 00:00:00
Tasks: Adversarial Robustness

Training convolutional neural networks (CNNs) with a strict 1-Lipschitz constraint under the $l_{2}$ norm is useful for adversarial robustness, interpretable gradients and stable training. 1-Lipschitz CNNs are usually designed by enforcing each layer to have an orthogonal Jacobian matrix (for all inputs) to prevent the gradients from vanishing during backpropagation. However, their performance often significantly lags behind that of heuristic methods to enforce Lipschitz constraints where the resulting CNN is not \textit{provably} 1-Lipschitz. In this work, we reduce this gap by introducing (a) a procedure to certify robustness of 1-Lipschitz CNNs by replacing the last linear layer with a 1-hidden layer MLP that significantly improves their performance for both standard and provably robust accuracy, (b) a method to significantly reduce the training time per epoch for Skew Orthogonal Convolution (SOC) layers (>30\% reduction for deeper networks) and (c) a class of pooling layers using the mathematical property that the $l_{2}$ distance of an input to a manifold is 1-Lipschitz. Using these methods, we significantly advance the state-of-the-art for standard and provable robust accuracies on CIFAR-10 (gains of +1.79\% and +3.82\%) and similarly on CIFAR-100 (+3.78\% and +4.75\%) across all networks. Code is available at \url{https://github.com/singlasahil14/improved_l2_robustness}.
Normalizing Flows for Hierarchical Bayesian Analysis: A Gravitational Wave Population Study
Authors: David Ruhe, Kaze Wong, Miles Cranmer, Patrick Forré
Date: 2022-11-15 00:00:00

We propose parameterizing the population distribution of the gravitational wave population modeling framework (Hierarchical Bayesian Analysis) with a normalizing flow. We first demonstrate the merit of this method on illustrative experiments and then analyze four parameters of the latest LIGO/Virgo data release: primary mass, secondary mass, redshift, and effective spin. Our results show that despite the small and notoriously noisy dataset, the posterior predictive distributions (assuming a prior over the parameters of the flow) of the observed gravitational wave population recover structure that agrees with robust previous phenomenological modeling results while being less susceptible to biases introduced by less flexible models. Therefore, the method forms a promising flexible, reliable replacement for population inference distributions, even when data is highly noisy.
DLKoopman: A deep learning software package for Koopman theory
Authors: Sourya Dey, Eric Davis
Date: 2022-11-15 00:00:00
Tasks: Deep Learning

We present DLKoopman -- a software package for Koopman theory that uses deep learning to learn an encoding of a nonlinear dynamical system into a linear space, while simultaneously learning the linear dynamics. While several previous efforts have either restricted the ability to learn encodings, or been bespoke efforts designed for specific systems, DLKoopman is a generalized tool that can be applied to data-driven learning and optimization of any dynamical system. It can either be trained on data from individual states (snapshots) of a system and used to predict its unknown states, or trained on data from trajectories of a system and used to predict unknown trajectories for new initial states. DLKoopman is available on the Python Package Index (PyPI) as 'dlkoopman', and includes extensive documentation and tutorials. Additional contributions of the package include a novel metric called Average Normalized Absolute Error for evaluating performance, and a ready-to-use hyperparameter search module for improving performance.
Detecting train driveshaft damages using accelerometer signals and Differential Convolutional Neural Networks
Authors: Antía López Galdo, Alejandro Guerrero-López, Pablo M. Olmos, María Jesús Gómez García
Date: 2022-11-15 00:00:00

Railway axle maintenance is critical to avoid catastrophic failures. Nowadays, condition monitoring techniques are becoming more prominent in the industry to prevent enormous costs and damage to human lives. This paper proposes the development of a railway axle condition monitoring system based on advanced 2D-Convolutional Neural Network (CNN) architectures applied to time-frequency representations of vibration signals. For this purpose, several preprocessing steps and different types of Deep Learning (DL) and Machine Learning (ML) architectures are discussed to design an accurate classification system. The resultant system converts the railway axle vibration signals into time-frequency domain representations, i.e., spectrograms, and, thus, trains a two-dimensional CNN to classify them depending on their cracks. The results showed that the proposed approach outperforms several alternative methods tested. The CNN architecture has been tested in 3 different wheelset assemblies, achieving AUC scores of 0.93, 0.86, and 0.75 outperforming any other architecture and showing a high level of reliability when classifying 4 different levels of defects.
Estimating Discontinuous Time-Varying Risk Factors and Treatment Benefits for COVID-19 with Interpretable ML
Authors: Benjamin Lengerich, Mark E. Nunnally, Yin Aphinyanaphongs, Rich Caruana
Date: 2022-11-15 00:00:00
Tasks: Additive models

Treatment protocols, disease understanding, and viral characteristics changed over the course of the COVID-19 pandemic; as a result, the risks associated with patient comorbidities and biomarkers also changed. We add to the conversation regarding inflammation, hemostasis and vascular function in COVID-19 by performing a time-varying observational analysis of over 4000 patients hospitalized for COVID-19 in a New York City hospital system from March 2020 to August 2021. To perform this analysis, we apply tree-based generalized additive models with temporal interactions which recover discontinuous risk changes caused by discrete protocols changes. We find that the biomarkers of thrombosis increasingly predicted mortality from March 2020 to August 2021, while the association between biomarkers of inflammation and thrombosis weakened. Beyond COVID-19, this presents a straightforward methodology to estimate unknown and discontinuous time-varying effects.
Renewing Iterative Self-labeling Domain Adaptation with Application to the Spine Motion Prediction
Authors: Gecheng Chen, Yu Zhou, Xudong Zhang, Rui Tuo
Date: 2022-11-14 00:00:00
Tasks: Domain Adaptation, motion prediction, Transfer Learning

The area of transfer learning comprises supervised machine learning methods that cope with the issue when the training and testing data have different input feature spaces or distributions. In this work, we propose a novel transfer learning algorithm called Renewing Iterative Self-labeling Domain Adaptation (Re-ISDA). In this work, we propose a novel transfer learning algorithm called Renewing Iterative Self-labeling Domain Adaptation (Re-ISDA).
Is my automatic audio captioning system so bad? spider-max: a metric to consider several caption candidates
Authors: Etienne Labbé, Thomas Pellegrini, Julien Pinquier
Date: 2022-11-14 00:00:00
Tasks: AudioCaps, Audio captioning, Information Retrieval, Retrieval, Sentence

Automatic Audio Captioning (AAC) is the task that aims to describe an audio signal using natural language. AAC systems take as input an audio signal and output a free-form text sentence, called a caption. Evaluating such systems is not trivial, since there are many ways to express the same idea. For this reason, several complementary metrics, such as BLEU, CIDEr, SPICE and SPIDEr, are used to compare a single automatic caption to one or several captions of reference, produced by a human annotator. Nevertheless, an automatic system can produce several caption candidates, either using some randomness in the sentence generation process, or by considering the various competing hypothesized captions during decoding with beam-search, for instance. If we consider an end-user of an AAC system, presenting several captions instead of a single one seems relevant to provide some diversity, similarly to information retrieval systems. In this work, we explore the possibility to consider several predicted captions in the evaluation process instead of one. For this purpose, we propose SPIDEr-max, a metric that takes the maximum SPIDEr value among the scores of several caption candidates. To advocate for our metric, we report experiments on Clotho v2.1 and AudioCaps, with a transformed-based system. On AudioCaps for example, this system reached a SPIDEr-max value (with 5 candidates) close to the SPIDEr human score of reference.
On Measuring the Intrinsic Few-Shot Hardness of Datasets
Authors: Xinran Zhao, Shikhar Murty, Christopher D. Manning
Date: 2022-11-16 00:00:00
Tasks: Few-Shot Learning

While advances in pre-training have led to dramatic improvements in few-shot learning of NLP tasks, there is limited understanding of what drives successful few-shot adaptation in datasets. In particular, given a new dataset and a pre-trained model, what properties of the dataset make it \emph{few-shot learnable} and are these properties independent of the specific adaptation techniques used? We consider an extensive set of recent few-shot learning methods, and show that their performance across a large number of datasets is highly correlated, showing that few-shot hardness may be intrinsic to datasets, for a given pre-trained model. To estimate intrinsic few-shot hardness, we then propose a simple and lightweight metric called "Spread" that captures the intuition that few-shot learning is made possible by exploiting feature-space invariances between training and test samples. Our metric better accounts for few-shot hardness compared to existing notions of hardness, and is ~8-100x faster to compute.
Prompting PaLM for Translation: Assessing Strategies and Performance
Authors: David Vilar, Markus Freitag, Colin Cherry, Jiaming Luo, Viresh Ratnakar, George Foster
Date: 2022-11-16 00:00:00
Tasks: Language Modeling, Language Modelling, Machine Translation, Translation

Large language models (LLMs) that have been trained on multilingual but not parallel text exhibit a remarkable ability to translate between languages. We probe this ability in an in-depth study of the pathways language model (PaLM), which has demonstrated the strongest machine translation (MT) performance among similarly-trained LLMs to date. We investigate various strategies for choosing translation examples for few-shot prompting, concluding that example quality is the most important factor. Using optimized prompts, we revisit previous assessments of PaLM's MT capabilities with more recent test sets, modern MT metrics, and human evaluation, and find that its performance, while impressive, still lags that of state-of-the-art supervised systems. We conclude by providing an analysis of PaLM's MT output which reveals some interesting properties and prospects for future work.