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Social Aspects/Accountability, Transparency and Interpretability

Ahmad CHAMMA, Denis Engemann, Bertrand Thirion

Variable importance assessment has become a crucial step in machine-learning applications when using complex learners, such as deep neural networks, on large-scale data. Removal-based importance assessment is currently the reference approach, particularly when statistical guarantees are sought to justify variable inclusion. It is often implemented with variable permutation schemes. On the flip side, these approaches risk misidentifying unimportant variables as important in the presence of correlations among covariates. Here we develop a systematic approach for studying Conditional Permutation Importance (CPI) that is model agnostic and computationally lean, as well as reusable benchmarks of state-of-the-art variable importance estimators. We show theoretically and empirically that \textit{CPI} overcomes the limitations of standard permutation importance by providing accurate type-I error control. When used with a deep neural network, \textit{CPI} consistently showed top accuracy across benchmarks. An experiment on real-world data analysis in a large-scale medical dataset showed that \textit{CPI} provides a more parsimonious selection of statistically significant variables. Our results suggest that \textit{CPI} can be readily used as drop-in replacement for permutation-based methods.

Applications/Computer Vision

Jianwei Tang, Jiangxin Sun, Xiaotong Lin, lifang zhang, Wei-Shi Zheng, Jian-Fang Hu

Human Motion Prediction (HMP) aims to predict future poses at different moments according to past motion sequences. Previous approaches have treated the prediction of various moments equally, resulting in two main limitations: the learning of short-term predictions is hindered by the focus on long-term predictions, and the incorporation of prior information from past predictions into subsequent predictions is limited. In this paper, we introduce a novel multi-stage training framework called Temporal Continual Learning (TCL) to address the above challenges. To better preserve prior information, we introduce the Prior Compensation Factor (PCF). We incorporate it into the model training to compensate for the lost prior information. Furthermore, we derive a more reasonable optimization objective through theoretical derivation. It is important to note that our TCL framework can be easily integrated with different HMP backbone models and adapted to various datasets and applications. Extensive experiments on four HMP benchmark datasets demonstrate the effectiveness and flexibility of TCL. The code is available at https://github.com/hyqlat/TCL.

Applications/Health

Seongsu Bae, Daeun Kyung, Jaehee Ryu, Eunbyeol Cho, Gyubok Lee, Sunjun Kweon, Jungwoo Oh, Lei Ji, Eric Chang, Tackeun Kim 等

Electronic Health Records (EHRs), which contain patients' medical histories in various multi-modal formats, often overlook the potential for joint reasoning across imaging and table modalities underexplored in current EHR Question Answering (QA) systems. In this paper, we introduce EHRXQA, a novel multi-modal question answering dataset combining structured EHRs and chest X-ray images. To develop our dataset, we first construct two uni-modal resources: 1) The MIMIC- CXR-VQA dataset, our newly created medical visual question answering (VQA) benchmark, specifically designed to augment the imaging modality in EHR QA, and 2) EHRSQL (MIMIC-IV), a refashioned version of a previously established table-based EHR QA dataset. By integrating these two uni-modal resources, we successfully construct a multi-modal EHR QA dataset that necessitates both uni-modal and cross-modal reasoning. To address the unique challenges of multi-modal questions within EHRs, we propose a NeuralSQL-based strategy equipped with an external VQA API. This pioneering endeavor enhances engagement with multi-modal EHR sources and we believe that our dataset can catalyze advances in real-world medical scenarios such as clinical decision-making and research. EHRXQA is available at https://github.com/baeseongsu/ehrxqa.

Deep Learning/Robustness

Cheng-Hao Tu, Hong-You Chen, Zheda Mai, Jike Zhong, Vardaan Pahuja, Tanya Berger-Wolf, Song Gao, Charles Stewart, Yu Su, Wei-Lun (Harry) Chao

We propose a learning problem involving adapting a pre-trained source model to the target domain for classifying all classes that appeared in the source data, using target data that covers only a partial label space. This problem is practical, as it is unrealistic for the target end-users to collect data for all classes prior to adaptation. However, it has received limited attention in the literature. To shed light on this issue, we construct benchmark datasets and conduct extensive experiments to uncover the inherent challenges. We found a dilemma --- on the one hand, adapting to the new target domain is important to claim better performance; on the other hand, we observe that preserving the classification accuracy of classes missing in the target adaptation data is highly challenging, let alone improving them. To tackle this, we identify two key directions: 1) disentangling domain gradients from classification gradients, and 2) preserving class relationships. We present several effective solutions that maintain the accuracy of the missing classes and enhance the overall performance, establishing solid baselines for holistic transfer of pre-trained models with partial target data.

Miscellaneous Aspects of Machine Learning/General Machine Learning Techniques

Federico Matteucci, Vadim Arzamasov, Klemens Böhm

Categorical encoders transform categorical features into numerical representations that are indispensable for a wide range of machine learning models.Existing encoder benchmark studies lack generalizability because of their limited choice of (1) encoders, (2) experimental factors, and (3) datasets. Additionally, inconsistencies arise from the adoption of varying aggregation strategies.This paper is the most comprehensive benchmark of categorical encoders to date, including an extensive evaluation of 32 configurations of encoders from diverse families, with 36 combinations of experimental factors, and on 50 datasets.The study shows the profound influence of dataset selection, experimental factors, and aggregation strategies on the benchmark's conclusions~---~aspects disregarded in previous encoder benchmarks.Our code is available at \url{https://github.com/DrCohomology/EncoderBenchmarking}.

Applications/Everything Else

Jungtaek Kim, Mingxuan Li, Oliver Hinder, Paul Leu

Nanophotonic structures have versatile applications including solar cells, anti-reflective coatings, electromagnetic interference shielding, optical filters, and light emitting diodes. To design and understand these nanophotonic structures, electrodynamic simulations are essential. These simulations enable us to model electromagnetic fields over time and calculate optical properties. In this work, we introduce frameworks and benchmarks to evaluate nanophotonic structures in the context of parametric structure design problems. The benchmarks are instrumental in assessing the performance of optimization algorithms and identifying an optimal structure based on target optical properties. Moreover, we explore the impact of varying grid sizes in electrodynamic simulations, shedding light on how evaluation fidelity can be strategically leveraged in enhancing structure designs.

Applications/Physics

Wai Tong Chung, Bassem Akoush, Pushan Sharma, Alex Tamkin, Ki Sung Jung, Jacqueline Chen, Jack Guo, Davy Brouzet, Mohsen Talei, Bruno Savard 等

Analysis of compressible turbulent flows is essential for applications related to propulsion, energy generation, and the environment. Here, we present BLASTNet 2.0, a 2.2 TB network-of-datasets containing 744 full-domain samples from 34 high-fidelity direct numerical simulations, which addresses the current limited availability of 3D high-fidelity reacting and non-reacting compressible turbulent flow simulation data. With this data, we benchmark a total of 49 variations of five deep learning approaches for 3D super-resolution - which can be applied for improving scientific imaging, simulations, turbulence models, as well as in computer vision applications. We perform neural scaling analysis on these models to examine the performance of different machine learning (ML) approaches, including two scientific ML techniques. We demonstrate that (i) predictive performance can scale with model size and cost, (ii) architecture matters significantly, especially for smaller models, and (iii) the benefits of physics-based losses can persist with increasing model size. The outcomes of this benchmark study are anticipated to offer insights that can aid the design of 3D super-resolution models, especially for turbulence models, while this data is expected to foster ML methods for a broad range of flow physics applications. This data is publicly available with download links and browsing tools consolidated at https://blastnet.github.io.

Applications/Robotics

Yao Mu, Qinglong Zhang, Mengkang Hu, Wenhai Wang, Mingyu Ding, Jun Jin, Bin Wang, Jifeng Dai, Yu Qiao, Ping Luo

Embodied AI is a crucial frontier in robotics, capable of planning and executing action sequences for robots to accomplish long-horizon tasks in physical environments.In this work, we introduce EmbodiedGPT, an end-to-end multi-modal foundation model for embodied AI, empowering embodied agents with multi-modal understanding and execution capabilities. To achieve this, we have made the following efforts: (i) We craft a large-scale embodied planning dataset, termed EgoCOT. The dataset consists of carefully selected videos from the Ego4D dataset, along with corresponding high-quality language instructions. Specifically, we generate a sequence of sub-goals with the "Chain of Thoughts" mode for effective embodied planning.(ii) We introduce an efficient training approach to EmbodiedGPT for high-quality plan generation, by adapting a 7B large language model (LLM) to the EgoCOT dataset via prefix tuning. (iii) We introduce a paradigm for extracting task-related features from LLM-generated planning queries to form a closed loop between high-level planning and low-level control.Extensive experiments show the effectiveness of EmbodiedGPT on embodied tasks, including embodied planning, embodied control, visual captioning, and visual question answering.Notably, EmbodiedGPT significantly enhances the success rate of the embodied control task by extracting more effective features. It has achieved a remarkable 1.6 times increase in success rate on the Franka Kitchen benchmark and a 1.3 times increase on the Meta-World benchmark, compared to the BLIP-2 baseline fine-tuned with the Ego4D dataset.

Deep Learning/Generative Models and Autoencoders

Yingqiang Ge, Wenyue Hua, Kai Mei, jianchao ji, Juntao Tan, Shuyuan Xu, Zelong Li, Yongfeng Zhang

Human Intelligence (HI) excels at combining basic skills to solve complex tasks. This capability is vital for Artificial Intelligence (AI) and should be embedded in comprehensive AI Agents, enabling them to harness expert models for complex task-solving towards Artificial General Intelligence (AGI). Large Language Models (LLMs) show promising learning and reasoning abilities, and can effectively use external models, tools, plugins, or APIs to tackle complex problems. In this work, we introduce OpenAGI, an open-source AGI research and development platform designed for solving multi-step, real-world tasks. Specifically, OpenAGI uses a dual strategy, integrating standard benchmark tasks for benchmarking and evaluation, and open-ended tasks including more expandable models, tools, plugins, or APIs for creative problem-solving. Tasks are presented as natural language queries to the LLM, which then selects and executes appropriate models. We also propose a Reinforcement Learning from Task Feedback (RLTF) mechanism that uses task results to improve the LLM's task-solving ability, which creates a self-improving AI feedback loop. While we acknowledge that AGI is a broad and multifaceted research challenge with no singularly defined solution path, the integration of LLMs with domain-specific expert models, inspired by mirroring the blend of general and specialized intelligence in humans, offers a promising approach towards AGI. We are open-sourcing the OpenAGI project's code, dataset, benchmarks, evaluation methods, and the UI demo to foster community involvement in AGI advancement: https://github.com/agiresearch/OpenAGI.

Applications/Chemistry and Drug Discovery

Haiyang Yu, Meng Liu, Youzhi Luo, Alex Strasser, Xiaofeng Qian, Xiaoning Qian, Shuiwang Ji

Supervised machine learning approaches have been increasingly used in accelerating electronic structure prediction as surrogates of first-principle computational methods, such as density functional theory (DFT). While numerous quantum chemistry datasets focus on chemical properties and atomic forces, the ability to achieve accurate and efficient prediction of the Hamiltonian matrix is highly desired, as it is the most important and fundamental physical quantity that determines the quantum states of physical systems and chemical properties. In this work, we generate a new Quantum Hamiltonian dataset, named as QH9, to provide precise Hamiltonian matrices for 2,399 molecular dynamics trajectories and 130,831 stable molecular geometries, based on the QM9 dataset. By designing benchmark tasks with various molecules, we show that current machine learning models have the capacity to predict Hamiltonian matrices for arbitrary molecules. Both the QH9 dataset and the baseline models are provided to the community through an open-source benchmark, which can be highly valuable for developing machine learning methods and accelerating molecular and materials design for scientific and technological applications. Our benchmark is publicly available at \url{https://github.com/divelab/AIRS/tree/main/OpenDFT/QHBench}.

Reinforcement Learning/Batch Offline

Seokin Seo, HyeongJoo Hwang, Hongseok Yang, Kee-Eung Kim

For partially observable environments, imitation learning with observation histories (ILOH) assumes that control-relevant information is sufficiently captured in the observation histories for imitating the expert actions. In the offline setting wherethe agent is required to learn to imitate without interaction with the environment, behavior cloning (BC) has been shown to be a simple yet effective method for imitation learning. However, when the information about the actions executed in the past timesteps leaks into the observation histories, ILOH via BC often ends up imitating its own past actions. In this paper, we address this catastrophic failure by proposing a principled regularization for BC, which we name Past Action Leakage Regularization (PALR). The main idea behind our approach is to leverage the classical notion of conditional independence to mitigate the leakage. We compare different instances of our framework with natural choices of conditional independence metric and its estimator. The result of our comparison advocates the use of a particular kernel-based estimator for the conditional independence metric. We conduct an extensive set of experiments on benchmark datasets in order to assess the effectiveness of our regularization method. The experimental results show that our method significantly outperforms prior related approaches, highlighting its potential to successfully imitate expert actions when the past action information leaks into the observation histories.

Applications/Physics

Artur Toshev, Gianluca Galletti, Fabian Fritz, Stefan Adami, Nikolaus Adams

Machine learning has been successfully applied to grid-based PDE modeling in various scientific applications. However, learned PDE solvers based on Lagrangian particle discretizations, which are the preferred approach to problems with free surfaces or complex physics, remain largely unexplored. We present LagrangeBench, the first benchmarking suite for Lagrangian particle problems, focusing on temporal coarse-graining. In particular, our contribution is: (a) seven new fluid mechanics datasets (four in 2D and three in 3D) generated with the Smoothed Particle Hydrodynamics (SPH) method including the Taylor-Green vortex, lid-driven cavity, reverse Poiseuille flow, and dam break, each of which includes different physics like solid wall interactions or free surface, (b) efficient JAX-based API with various recent training strategies and three neighbor search routines, and (c) JAX implementation of established Graph Neural Networks (GNNs) like GNS and SEGNN with baseline results. Finally, to measure the performance of learned surrogates we go beyond established position errors and introduce physical metrics like kinetic energy MSE and Sinkhorn distance for the particle distribution. Our codebase is available under the URL: [https://github.com/tumaer/lagrangebench](https://github.com/tumaer/lagrangebench).

Applications/Robotics

Hongxin Li, Jingran Su, Yuntao Chen, Qing Li, ZHAO-XIANG ZHANG

Computer end users have spent billions of hours completing daily tasks like tabular data processing and project timeline scheduling. Most of these tasks are repetitive and error-prone, yet most end users lack the skill to automate these burdensome works. With the advent of large language models (LLMs), directing software with natural language user requests become a reachable goal. In this work, we propose a SheetCopilot agent that takes natural language task and control spreadsheet to fulfill the requirements. We propose a set of atomic actions as an abstraction of spreadsheet software functionalities. We further design a state machine-based task planning framework for LLMs to robustly interact with spreadsheets. We curate a representative dataset containing 221 spreadsheet control tasks and establish a fully automated evaluation pipeline for rigorously benchmarking the ability of LLMs in software control tasks. Our SheetCopilot correctly completes 44.3\% of tasks for a single generation, outperforming the strong code generation baseline by a wide margin. Our project page: https://sheetcopilot.github.io/.

Deep Learning/Other Representation Learning

Vedant Nanda, Till Speicher, John Dickerson, Krishna Gummadi, Soheil Feizi, Adrian Weller

Representations learned by pre-training a neural network on a large dataset are increasingly used successfully to perform a variety of downstream tasks. In this work, we take a closer look at how features are encoded in such pre-trained representations. We find that learned representations in a given layer exhibit a degree of diffuse redundancy, ie, any randomly chosen subset of neurons in the layer that is larger than a threshold size shares a large degree of similarity with the full layer and is able to perform similarly as the whole layer on a variety of downstream tasks. For example, a linear probe trained on $20\%$ of randomly picked neurons from the penultimate layer of a ResNet50 pre-trained on ImageNet1k achieves an accuracy within $5\%$ of a linear probe trained on the full layer of neurons for downstream CIFAR10 classification. We conduct experiments on different neural architectures (including CNNs and Transformers) pre-trained on both ImageNet1k and ImageNet21k and evaluate a variety of downstream tasks taken from the VTAB benchmark. We find that the loss \& dataset used during pre-training largely govern the degree of diffuse redundancy and the "critical mass" of neurons needed often depends on the downstream task, suggesting that there is a task-inherent redundancy-performance Pareto frontier. Our findings shed light on the nature of representations learned by pre-trained deep neural networks and suggest that entire layers might not be necessary to perform many downstream tasks. We investigate the potential for exploiting this redundancy to achieve efficient generalization for downstream tasks and also draw caution to certain possible unintended consequences. Our code is available at \url{https://github.com/nvedant07/diffused-redundancy}.

Applications/Health

Chenyu You, Weicheng Dai, Yifei Min, Fenglin Liu, David Clifton, S. Kevin Zhou, Lawrence Staib, James Duncan

For medical image segmentation, contrastive learning is the dominant practice to improve the quality of visual representations by contrasting semantically similar and dissimilar pairs of samples. This is enabled by the observation that without accessing ground truth labels, negative examples with truly dissimilar anatomical features, if sampled, can significantly improve the performance. In reality, however, these samples may come from similar anatomical features and the models may struggle to distinguish the minority tail-class samples, making the tail classes more prone to misclassification, both of which typically lead to model collapse. In this paper, we propose $\texttt{ARCO}$, a semi-supervised contrastive learning (CL) framework with stratified group theory for medical image segmentation. In particular, we first propose building $\texttt{ARCO}$ through the concept of variance-reduced estimation, and show that certain variance-reduction techniques are particularly beneficial in pixel/voxel-level segmentation tasks with extremely limited labels. Furthermore, we theoretically prove these sampling techniques are universal in variance reduction. Finally, we experimentally validate our approaches on eight benchmarks, i.e., five 2D/3D medical and three semantic segmentation datasets, with different label settings, and our methods consistently outperform state-of-the-art semi-supervised methods. Additionally, we augment the CL frameworks with these sampling techniques and demonstrate significant gains over previous methods. We believe our work is an important step towards semi-supervised medical image segmentation by quantifying the limitation of current self-supervision objectives for accomplishing such challenging safety-critical tasks.

Applications/Chemistry and Drug Discovery

Qizhi Pei, Kaiyuan Gao, Lijun Wu, Jinhua Zhu, Yingce Xia, Shufang Xie, Tao Qin, Kun He, Tie-Yan Liu, Rui Yan

Modeling the interaction between proteins and ligands and accurately predicting their binding structures is a critical yet challenging task in drug discovery. Recent advancements in deep learning have shown promise in addressing this challenge, with sampling-based and regression-based methods emerging as two prominent approaches. However, these methods have notable limitations. Sampling-based methods often suffer from low efficiency due to the need for generating multiple candidate structures for selection. On the other hand, regression-based methods offer fast predictions but may experience decreased accuracy. Additionally, the variation in protein sizes often requires external modules for selecting suitable binding pockets, further impacting efficiency. In this work, we propose FABind, an end-to-end model that combines pocket prediction and docking to achieve accurate and fast protein-ligand binding. FABind incorporates a unique ligand-informed pocket prediction module, which is also leveraged for docking pose estimation. The model further enhances the docking process by incrementally integrating the predicted pocket to optimize protein-ligand binding, reducing discrepancies between training and inference. Through extensive experiments on benchmark datasets, our proposed FABind demonstrates strong advantages in terms of effectiveness and efficiency compared to existing methods. Our code is available at https://github.com/QizhiPei/FABind.

Applications/Computer Vision

Xin Shen, Shaozu Yuan, Hongwei Sheng, Heming Du, Xin Yu

Sign language translation (SLT) aims to convert a continuous sign language video clip into a spoken language. Considering different geographic regions generally have their own native sign languages, it is valuable to establish corresponding SLT datasets to support related communication and research. Auslan, as a sign language specific to Australia, still lacks a dedicated large-scale dataset for SLT.To fill this gap, we curate an Australian Sign Language translation dataset, dubbed Auslan-Daily, which is collected from the Auslan educational TV series and Auslan TV programs. The former involves daily communications among multiple signers in the wild, while the latter comprises sign language videos for up-to-date news, weather forecasts, and documentaries. In particular, Auslan-Daily has two main features: (1) the topics are diverse and signed by multiple signers, and (2) the scenes in our dataset are more complex, e.g., captured in various environments, gesture interference during multi-signers' interactions and various camera positions. With a collection of more than 45 hours of high-quality Auslan video materials, we invite Auslan experts to align different fine-grained visual and language pairs, including video $\leftrightarrow$ fingerspelling, video $\leftrightarrow$ gloss, and video $\leftrightarrow$ sentence. As a result, Auslan-Daily contains multi-grained annotations that can be utilized to accomplish various fundamental sign language tasks, such as signer detection, sign spotting, fingerspelling detection, isolated sign language recognition, sign language translation and alignment. Moreover, we benchmark results with state-of-the-art models for each task in Auslan-Daily. Experiments indicate that Auslan-Daily is a highly challenging SLT dataset, and we hope this dataset will contribute to the development of Auslan and the advancement of sign languages worldwide in a broader context. All datasets and benchmarks are available at Auslan-Daily.

Social Aspects/Accountability, Transparency and Interpretability

Chiyu Ma, Brandon Zhao, Chaofan Chen, Cynthia Rudin

We present ProtoConcepts, a method for interpretable image classification combining deep learning and case-based reasoning using prototypical parts. Existing work in prototype-based image classification uses a "this looks like that'' reasoning process, which dissects a test image by finding prototypical parts and combining evidence from these prototypes to make a final classification. However, all of the existing prototypical part-based image classifiers provide only one-to-one comparisons, where a single training image patch serves as a prototype to compare with a part of our test image. With these single-image comparisons, it can often be difficult to identify the underlying concept being compared (e.g., "is it comparing the color or the shape?''). Our proposed method modifies the architecture of prototype-based networks to instead learn prototypical concepts which are visualized using multiple image patches. Having multiple visualizations of the same prototype allows us to more easily identify the concept captured by that prototype (e.g., "the test image and the related training patches are all the same shade of blue''), and allows our model to create richer, more interpretable visual explanations. Our experiments show that our ``this looks like those'' reasoning process can be applied as a modification to a wide range of existing prototypical image classification networks while achieving comparable accuracy on benchmark datasets.

Social Aspects/Accountability, Transparency and Interpretability

Max Torop, Aria Masoomi, Davin Hill, Kivanc Kose, Stratis Ioannidis, Jennifer Dy

Several recent methods for interpretability model feature interactions by looking at the Hessian of a neural network. This poses a challenge for ReLU networks, which are piecewise-linear and thus have a zero Hessian almost everywhere. We propose SmoothHess, a method of estimating second-order interactions through Stein's Lemma. In particular, we estimate the Hessian of the network convolved with a Gaussian through an efficient sampling algorithm, requiring only network gradient calls. SmoothHess is applied post-hoc, requires no modifications to the ReLU network architecture, and the extent of smoothing can be controlled explicitly. We provide a non-asymptotic bound on the sample complexity of our estimation procedure. We validate the superior ability of SmoothHess to capture interactions on benchmark datasets and a real-world medical spirometry dataset.

Applications/Computer Vision

Zihui (Sherry) Xue, Kristen Grauman

The egocentric and exocentric viewpoints of a human activity look dramatically different, yet invariant representations to link them are essential for many potential applications in robotics and augmented reality. Prior work is limited to learning view-invariant features from paired synchronized viewpoints. We relax that strong data assumption and propose to learn fine-grained action features that are invariant to the viewpoints by aligning egocentric and exocentric videos in time, even when not captured simultaneously or in the same environment. To this end, we propose AE2, a self-supervised embedding approach with two key designs: (1) an object-centric encoder that explicitly focuses on regions corresponding to hands and active objects; (2) a contrastive-based alignment objective that leverages temporally reversed frames as negative samples. For evaluation, we establish a benchmark for fine-grained video understanding in the ego-exo context, comprising four datasets---including an ego tennis forehand dataset we collected, along with dense per-frame labels we annotated for each dataset. On the four datasets, our AE2 method strongly outperforms prior work in a variety of fine-grained downstream tasks, both in regular and cross-view settings.