Daily Papers

Active Learning (AL) has gained prominence in integrating data-intensive machine learning (ML) models into domains with limited labeled data. However, its effectiveness diminishes significantly when the labeling budget is low. In this paper, we first empirically observe the performance degradation of existing AL algorithms in the low-budget settings, and then introduce Direct Acquisition Optimization (DAO), a novel AL algorithm that optimizes sample selections based on expected true loss reduction. Specifically, DAO utilizes influence functions to update model parameters and incorporates an additional acquisition strategy to mitigate bias in loss estimation. This approach facilitates a more accurate estimation of the overall error reduction, without extensive computations or reliance on labeled data. Experiments demonstrate DAO's effectiveness in low budget settings, outperforming state-of-the-arts approaches across seven benchmarks.

The recent and increasing interest in video-language research has driven the development of large-scale datasets that enable data-intensive machine learning techniques. In comparison, limited effort has been made at assessing the fitness of these datasets for the video-language grounding task. Recent works have begun to discover significant limitations in these datasets, suggesting that state-of-the-art techniques commonly overfit to hidden dataset biases. In this work, we present MAD (Movie Audio Descriptions), a novel benchmark that departs from the paradigm of augmenting existing video datasets with text annotations and focuses on crawling and aligning available audio descriptions of mainstream movies. MAD contains over 384,000 natural language sentences grounded in over 1,200 hours of videos and exhibits a significant reduction in the currently diagnosed biases for video-language grounding datasets. MAD's collection strategy enables a novel and more challenging version of video-language grounding, where short temporal moments (typically seconds long) must be accurately grounded in diverse long-form videos that can last up to three hours. We have released MAD's data and baselines code at https://github.com/Soldelli/MAD.

Modern astronomical surveys, such as the Zwicky Transient Facility (ZTF), are capable of detecting thousands of transient events per year, necessitating the use of automated and scalable data analysis techniques. Recent advances in machine learning have enabled the efficient classification and characterization of these transient phenomena. We aim to develop a fully systematic pipeline to identify candidate stellar collision events in galactic nuclei, which may otherwise be identified as tidal disruption events or other transients. We also seek to validate our simulations by comparing key physical parameters derived from observations and used in modeling these events. We generate a comprehensive bank of simulated light curves spanning a range of physical parameters and employ an approximate nearest neighbor algorithm (via the annoy library) to match these with observed ZTF light curves. Our pipeline is successfully able to associate observed ZTF light curves with simulated events. The resulting estimated parameters, including supermassive black hole masses and ejecta mass, are presented and compared to known values when applicable. We demonstrate that a systematic, machine learning-based approach can effectively identify and characterize stellar collision candidate events from large-scale transient surveys. This methodology is especially promising for future surveys which will provide us with significantly high volumes of data, such as LSST, where automated, data-intensive analysis will be critical for advancing our understanding of transient astrophysical phenomena.

Machine learning has been highly successful in data-intensive applications but is often hampered when the data set is small. Recently, Few-Shot Learning (FSL) is proposed to tackle this problem. Using prior knowledge, FSL can rapidly generalize to new tasks containing only a few samples with supervised information. In this paper, we conduct a thorough survey to fully understand FSL. Starting from a formal definition of FSL, we distinguish FSL from several relevant machine learning problems. We then point out that the core issue in FSL is that the empirical risk minimized is unreliable. Based on how prior knowledge can be used to handle this core issue, we categorize FSL methods from three perspectives: (i) data, which uses prior knowledge to augment the supervised experience; (ii) model, which uses prior knowledge to reduce the size of the hypothesis space; and (iii) algorithm, which uses prior knowledge to alter the search for the best hypothesis in the given hypothesis space. With this taxonomy, we review and discuss the pros and cons of each category. Promising directions, in the aspects of the FSL problem setups, techniques, applications and theories, are also proposed to provide insights for future research.

Multiple sequence alignments (MSAs) of proteins encode rich biological information and have been workhorses in bioinformatic methods for tasks like protein design and protein structure prediction for decades. Recent breakthroughs like AlphaFold2 that use transformers to attend directly over large quantities of raw MSAs have reaffirmed their importance. Generation of MSAs is highly computationally intensive, however, and no datasets comparable to those used to train AlphaFold2 have been made available to the research community, hindering progress in machine learning for proteins. To remedy this problem, we introduce OpenProteinSet, an open-source corpus of more than 16 million MSAs, associated structural homologs from the Protein Data Bank, and AlphaFold2 protein structure predictions. We have previously demonstrated the utility of OpenProteinSet by successfully retraining AlphaFold2 on it. We expect OpenProteinSet to be broadly useful as training and validation data for 1) diverse tasks focused on protein structure, function, and design and 2) large-scale multimodal machine learning research.

Graphs have often been used to answer questions about the interaction between real-world entities by taking advantage of their capacity to represent complex topologies. Complex networks are known to be graphs that capture such non-trivial topologies; they are able to represent human phenomena such as epidemic processes, the dynamics of populations, and the urbanization of cities. The investigation of complex networks has been extrapolated to many fields of science, with particular emphasis on computing techniques, including artificial intelligence. In such a case, the analysis of the interaction between entities of interest is transposed to the internal learning of algorithms, a paradigm whose investigation is able to expand the state of the art in Computer Science. By exploring this paradigm, this thesis puts together complex networks and machine learning techniques to improve the understanding of the human phenomena observed in pandemics, pendular migration, and street networks. Accordingly, we contribute with: (i) a new neural network architecture capable of modeling dynamic processes observed in spatial and temporal data with applications in epidemics propagation, weather forecasting, and patient monitoring in intensive care units; (ii) a machine-learning methodology for analyzing and predicting links in the scope of human mobility between all the cities of Brazil; and, (iii) techniques for identifying inconsistencies in the urban planning of cities while tracking the most influential vertices, with applications over Brazilian and worldwide cities. We obtained results sustained by sound evidence of advances to the state of the art in artificial intelligence, rigorous formalisms, and ample experimentation. Our findings rely upon real-world applications in a range of domains, demonstrating the applicability of our methodologies.

The COVID-19 pandemic has posed a heavy burden to the healthcare system worldwide and caused huge social disruption and economic loss. Many deep learning models have been proposed to conduct clinical predictive tasks such as mortality prediction for COVID-19 patients in intensive care units using Electronic Health Record (EHR) data. Despite their initial success in certain clinical applications, there is currently a lack of benchmarking results to achieve a fair comparison so that we can select the optimal model for clinical use. Furthermore, there is a discrepancy between the formulation of traditional prediction tasks and real-world clinical practice in intensive care. To fill these gaps, we propose two clinical prediction tasks, Outcome-specific length-of-stay prediction and Early mortality prediction for COVID-19 patients in intensive care units. The two tasks are adapted from the naive length-of-stay and mortality prediction tasks to accommodate the clinical practice for COVID-19 patients. We propose fair, detailed, open-source data-preprocessing pipelines and evaluate 17 state-of-the-art predictive models on two tasks, including 5 machine learning models, 6 basic deep learning models and 6 deep learning predictive models specifically designed for EHR data. We provide benchmarking results using data from two real-world COVID-19 EHR datasets. One dataset is publicly available without needing any inquiry and another dataset can be accessed on request. We provide fair, reproducible benchmarking results for two tasks. We deploy all experiment results and models on an online platform. We also allow clinicians and researchers to upload their data to the platform and get quick prediction results using our trained models. We hope our efforts can further facilitate deep learning and machine learning research for COVID-19 predictive modeling.