ICML 2024 Papers

Molecular surfaces imply fingerprints of interaction patterns between proteins. However, non-equivalent efforts have been paid to incorporating the abundant protein surface information for analyzing proteins' biological functions in juxtaposition to amino acid sequences and 3D structures. We propose a novel surface-based unsupervised learning algorithm termed Surface-VQMAE to overcome this obstacle. In light of surface point clouds' sparsity and disorder properties, we first partition them into patches and obtain the sequential arrangement via the Morton curve. Successively, a Transformer-based architecture named SurfFormer was introduced to integrate the surface geometry and capture patch-level relations. At last, we enhance the prevalent masked auto-encoder (MAE) with the vector quantization (VQ) technique, which establishes a surface pattern codebook to enforce a discrete posterior distribution of latent variables and achieve more condensed semantics. Our work is the foremost to implement pretraining purely on molecular surfaces and extensive experiments on diverse real-life scenarios including binding site scoring, binding affinity prediction, and mutant effect estimation demonstrate its effectiveness. The code is available at https://github.com/smiles724/VQMAE.

Recent advances in adversarial robustness rely on an abundant set of training data, where using external or additional datasets has become a common setting. However, in real life, the training data is often kept private for security and privacy issues, while only the pretrained weight is available to the public. In such scenarios, existing methods that assume accessibility to the original data become inapplicable. Thus we investigate the pivotal problem of data-free adversarial robustness, where we try to achieve adversarial robustness without accessing any real data. Through a preliminary study, we highlight the severity of the problem by showing that robustness without the original dataset is difficult to achieve, even with similar domain datasets. To address this issue, we propose DataFreeShield, which tackles the problem from two perspectives: surrogate dataset generation and adversarial training using the generated data. Through extensive validation, we show that DataFreeShield outperforms baselines, demonstrating that the proposed method sets the first entirely data-free solution for the adversarial robustness problem.

Dynamic Sparse Training (DST) is an effective approach for addressing the substantial training resource requirements posed by the ever-increasing size of the Deep Neural Networks (DNNs). Characterized by its dynamic "train-prune-grow'' schedule during training, DST implicitly develops a bi-level structure for training the weights while discovering a subnetwork topology. However, such a structure is consistently overlooked by the current DST algorithms for further optimization opportunities, and these algorithms, on the other hand, solely optimize the weights while determining masks heuristically. In this paper, we extensively study DST algorithms and argue that the training scheme of DST naturally forms a bi-level problem in which the updating of weight and mask is interdependent. Based on this observation, we introduce a novel efficient training framework called BiDST, which for the first time, introduces bi-level optimization methodology into dynamic sparse training domain. Unlike traditional partial-heuristic DST schemes, which suffer from sub-optimal search efficiency for masks and miss the opportunity to fully explore the topological space of neural networks, BiDST excels at discovering excellent sparse patterns by optimizing mask and weight simultaneously, resulting in maximum 2.62% higher accuracy, 2.1$\times$ faster execution speed, and 25$\times$ reduced overhead. Code available at https://github.com/jjsrf/BiDST-ICML2024.

Discrete diffusion or flow models could enable faster and more controllable sequence generation than autoregressive models. We show that naive linear flow matching on the simplex is insufficient toward this goal since it suffers from discontinuities in the training target and further pathologies. To overcome this, we develop Dirichlet flow matching on the simplex based on mixtures of Dirichlet distributions as probability paths. In this framework, we derive a connection between the mixtures' scores and the flow's vector field that allows for classifier and classifier-free guidance. Further, we provide distilled Dirichlet flow matching, which enables one-step sequence generation with minimal performance hits, resulting in $O(L)$ speedups compared to autoregressive models. On complex DNA sequence generation tasks, we demonstrate superior performance compared to all baselines in distributional metrics and in achieving desired design targets for generated sequences. Finally, we show that our classifier-free guidance approach improves unconditional generation and is effective for generating DNA that satisfies design targets.

Most text-to-3D generators build upon off-the-shelf text-to-image models trained on billions of images. They use variants of Score Distillation Sampling (SDS), which is slow, somewhat unstable, and prone to artifacts. A mitigation is to fine-tune the 2D generator to be multi-view aware, which can help distillation or can be combined with reconstruction networks to output 3D objects directly. In this paper, we further explore the design space of text-to-3D models. We significantly improve multi-view generation by considering video instead of image generators. Combined with a 3D reconstruction algorithm which, by using Gaussian splatting, can optimize a robust image-based loss, we directly produce high-quality 3D outputs from the generated views. Our new method, IM-3D, reduces the number of evaluations of the 2D generator network 10-100$\times$, resulting in a much more efficient pipeline, better quality, fewer geometric inconsistencies, and higher yield of usable 3D assets.

Static sparse training aims to train sparse models from scratch, achieving remarkable results in recent years. A key design choice is given by the sparse initialization, which determines the trainable sub-network through a binary mask. Existing methods mainly select such mask based on a predefined dense initialization. Such an approach may not efficiently leverage the mask's potential impact on the optimization. An alternative direction, inspired by research into dynamical isometry, is to introduce orthogonality in the sparse subnetwork, which helps in stabilizing the gradient signal. In this work, we propose Exact Orthogonal Initialization (EOI), a novel sparse orthogonal initialization scheme based on composing random Givens rotations. Contrary to other existing approaches, our method provides exact (not approximated) orthogonality and enables the creation of layers with arbitrary densities. We demonstrate the superior effectiveness and efficiency of EOI through experiments, consistently outperforming common sparse initialization techniques. Our method enables training highly sparse 1000-layer MLP and CNN networks without residual connections or normalization techniques, emphasizing the crucial role of weight initialization in static sparse training alongside sparse mask selection.

Speculative Sampling (SpS) has been introduced to speed up inference of large language models (LLMs) by generating multiple tokens in a single forward pass under the guidance of a reference model, while preserving the original distribution. We observe that SpS can be derived through maximum coupling on the token distribution. However, we find that this approach is not optimal as it applies maximum coupling incrementally for each new token, rather than seeking a global maximum coupling that yields a faster algorithm, given the tree-space nature of LLM generative distributions. In this paper, we shift our focus from distributions on a token space to those on a tree space. We propose a novel class of Tree Monte Carlo (TMC) methods, demonstrating their unbiasedness and convergence. As a particular instance of TMC, our new algorithm, Accelerated Speculative Sampling (ASpS), outperforms traditional SpS by generating more tokens per step on average, achieving faster inference, while maintaining the original distribution.

With the rise of social media and the proliferation of facial recognition surveillance, concerns surrounding privacy have escalated significantly. While numerous studies have concentrated on safeguarding users against unauthorized face recognition, a new and often overlooked issue has emerged due to advances in facial restoration techniques: traditional methods of facial obfuscation may no longer provide a secure shield, as they can potentially expose anonymous information to human perception. Our empirical study shows that blind face restoration (BFR) models can restore obfuscated faces with high probability by simply retraining them on obfuscated (e.g., pixelated) faces. To address it, we propose a transferable adversarial obfuscation method for privacy protection against BFR models. Specifically, we observed a common characteristic among BFR models, namely, their capability to approximate an inverse mapping of a transformation from a high-quality image domain to a low-quality image domain. Leveraging this shared model attribute, we have developed a domain-consistent adversarial method for generating obfuscated images. In essence, our method is designed to minimize overfitting to surrogate models during the perturbation generation process, thereby enhancing the generalization of adversarial obfuscated facial images. Extensive experiments on various BFR models demonstrate the effectiveness and transferability of the proposed method.

Motivated by the growing theoretical understanding of neural networks that employ the Rectified Linear Unit (ReLU) as their activation function, we revisit the use of ReLU activation functions for learning implicit neural representations (INRs). Inspired by second order B-spline wavelets, we incorporate a set of simple constraints to the ReLU neurons in each layer of a deep neural network (DNN) to remedy the spectral bias. This in turn enables its use for various INR tasks. Empirically, we demonstrate that, contrary to popular belief, one *can learn* state-of-the-art INRs based on a DNN composed of only ReLU neurons. Next, by leveraging recent theoretical works which characterize the kinds of functions ReLU neural networks learn, we provide a way to quantify the regularity of the learned function. This offers a principled approach to selecting the hyperparameters in INR architectures. We substantiate our claims through experiments in signal representation, super resolution, and computed tomography, demonstrating the versatility and effectiveness of our method. The code for all experiments can be found at https://github.com/joeshenouda/relu-inrs.

Abductive Learning (ABL) is a promising framework for integrating sub-symbolic perception and logical reasoning through abduction. In this case, the abduction process provides supervision for the perception model from the background knowledge. Nevertheless, this process naturally contains uncertainty, since the knowledge base may be satisfied by numerous potential candidates. This implies that the result of the abduction process, i.e., a set of candidates, is ambiguous; both correct and incorrect candidates are mixed in this set. The prior art of abductive learning selects the candidate that has the minimal inconsistency of the knowledge base. However, this method overlooks the ambiguity in the abduction process and is prone to error when it fails to identify the correct candidates. To address this, we propose Ambiguity-Aware Abductive Learning ($\textrm{A}^3\textrm{BL}$), which evaluates all potential candidates and their probabilities, thus preventing the model from falling into sub-optimal solutions. Both experimental results and theoretical analyses prove that $\textrm{A}^3\textrm{BL}$ markedly enhances ABL by efficiently exploiting the ambiguous abduced supervision.

We study a model of machine teaching where the teacher mapping is constructed from a size function on both concepts and examples. The main question in machine teaching is the minimum number of examples needed for any concept, the so-called teaching dimension. A recent paper (Ferri et al., 2024) conjectured that the worst case for this model, as a function of the size of the concept class, occurs when the consistency matrix contains the binary representations of numbers from zero and up. In this paper we prove their conjecture. The result can be seen as a generalization of a theorem resolving the edge isoperimetry problem for hypercubes (Hart, 1976), and our proof is based on a lemma of (Graham, 1970).

With the breakthrough of large models, Segment Anything Model (SAM) and its extensions have been attempted to apply in diverse tasks of computer vision. Underwater salient instance segmentation is a foundational and vital step for various underwater vision tasks, which often suffer from low segmentation accuracy due to the complex underwater circumstances and the adaptive ability of models. Moreover, the lack of large-scale datasets with pixel-level salient instance annotations has impeded the development of machine learning techniques in this field. To address these issues, we construct the first large-scale underwater salient instance segmentation dataset (USIS10K), which contains 10,632 underwater images with pixel-level annotations in 7 categories from various underwater scenes. Then, we propose an Underwater Salient Instance Segmentation architecture based on Segment Anything Model (USIS-SAM) specifically for the underwater domain. We devise an Underwater Adaptive Visual Transformer (UA-ViT) encoder to incorporate underwater domain visual prompts into the segmentation network. We further design an out-of-the-box underwater Salient Feature Prompter Generator (SFPG) to automatically generate salient prompters instead of explicitly providing foreground points or boxes as prompts in SAM. Comprehensive experimental results show that our USIS-SAM method can achieve superior performance on USIS10K datasets compared to the state-of-the-art methods. Datasets and codes are released on https://github.com/LiamLian0727/USIS10K.

Traditional studies emphasize the significance of context information in improving matting performance. Consequently, deep learning-based matting methods delve into designing pooling or affinity-based context aggregation modules to achieve superior results. However, these modules cannot well handle the context scale shift caused by the difference in image size during training and inference, resulting in matting performance degradation. In this paper, we revisit the context aggregation mechanisms of matting networks and find that a basic encoder-decoder network without any context aggregation modules can actually learn more universal context aggregation, thereby achieving higher matting performance compared to existing methods. Building on this insight, we present AEMatter, a matting network that is straightforward yet very effective. AEMatter adopts a Hybrid-Transformer backbone with appearance-enhanced axis-wise learning (AEAL) blocks to build a basic network with strong context aggregation learning capability. Furthermore, AEMatter leverages a large image training strategy to assist the network in learning context aggregation from data. Extensive experiments on five popular matting datasets demonstrate that the proposed AEMatter outperforms state-of-the-art matting methods by a large margin. The source code is available at https://github.com/aipixel/AEMatter.

We study online learning problems in which a decision maker has to make a sequence of costly decisions, with the goal of maximizing their expected reward while adhering to budget and return-on-investment (ROI) constraints. Existing primal-dual algorithms designed for constrained online learning problems under adversarial inputs rely on two fundamental assumptions. First, the decision maker must know beforehand the value of parameters related to the degree of strict feasibility of the problem (i.e. Slater parameters). Second, a strictly feasible solution to the offline optimization problem must exist at each round. Both requirements are unrealistic for practical applications such as bidding in online ad auctions. In this paper, we show how such assumptions can be circumvented by endowing standard primal-dual templates with *weakly adaptive* regret minimizers. This results in a ``dual-balancing'' framework which ensures that dual variables stay sufficiently small, even in the absence of knowledge about Slater's parameter. We prove the first *best-of-both-worlds* no-regret guarantees which hold in absence of the two aforementioned assumptions, under stochastic and adversarial inputs. Finally, we show how to instantiate the framework to optimally bid in various mechanisms of practical relevance, such as first- and second-price auctions.

A fundamental approach to semi-supervised learning is to leverage the structure of the sample space to diffuse label information from annotated examples to unlabeled points. Traditional methods model the input data points as a graph and rely on fast algorithms for solving Laplacian systems of equations, such as those defining PageRank. However, previous work has demonstrated that graph-based models fail to capture higher-order relations, such as group membership, which are better modeled by hypergraphs. Unfortunately, the scalable application of hypergraph models has been hampered by the non-linearity of the hypergraph Laplacian. In this paper, we present highly scalable algorithms for hypergraph primitives, such as hypergraph PageRank vectors and hypergraph Laplacian systems, over general families of hypergraphs. In addition to giving strong theoretical guarantees, we empirically showcase the speed of our algorithms on benchmark instances of semi-supervised learning on categorical data. We exploit their generality to improve semi-supervised manifold clustering via hypergraph models. By providing significant speed-ups on fundamental hypergraph tasks, our algorithms enable the deployment of hypergraph models on a massive scale.

Recent work has shown that deep reinforcement learning agents have difficulty in effectively using their network parameters. We leverage prior insights into the advantages of sparse training techniques and demonstrate that gradual magnitude pruning enables value-based agents to maximize parameter effectiveness. This results in networks that yield dramatic performance improvements over traditional networks, using only a small fraction of the full network parameters. Our code is publicly available, see Appendix A for details.

Recent works have shown that machine learning models improve at a predictable rate with the amount of training data, leading to scaling laws that describe the relationship between error and dataset size. These scaling laws can help determine a model's training dataset, but they take an aggregate view of the data by only considering the dataset's size. We consider a new perspective by investigating scaling behavior for the value of individual data points: we find that a data point's contribution to model's performance shrinks predictably with the size of the dataset in a log-linear manner. Interestingly, there is significant variability in the scaling exponent among different data points, indicating that certain points are more valuable in small datasets and other points are relatively more useful as a part of large datasets. We provide learning theory support for our scaling laws and we observe empirically that it holds across several model classes. We further propose a maximum likelihood estimator and an amortized estimator to efficiently learn the individualized scaling behaviors from a small number of noisy observations per data point. Using our efficient estimators, we provide insights into factors that influence the scaling behavior of different data points. Finally we demonstrate applications of the individualized scaling laws to data valuation and data subset selection.

Bayesian optimization is a powerful framework for optimizing functions that are expensive or time-consuming to evaluate. Recent work has considered Bayesian optimization of function networks (BOFN), where the objective function is given by a network of functions, each taking as input the output of previous nodes in the network as well as additional parameters. Leveraging this network structure has been shown to yield significant performance improvements. Existing BOFN algorithms for general-purpose networks evaluate the full network at each iteration. However, many real-world applications allow for evaluating nodes individually. To exploit this, we propose a novel knowledge gradient acquisition function that chooses which node and corresponding inputs to evaluate in a cost-aware manner, thereby reducing query costs by evaluating only on a part of the network at each step. We provide an efficient approach to optimizing our acquisition function and show that it outperforms existing BOFN methods and other benchmarks across several synthetic and real-world problems. Our acquisition function is the first to enable cost-aware optimization of a broad class of function networks.

Discovering new drug molecules is a pivotal yet challenging process due to the near-infinitely large chemical space and notorious demands on time and resources. Numerous generative models have recently been introduced to accelerate the drug discovery process, but their progression to experimental validation remains limited, largely due to a lack of consideration for synthetic accessibility in practical settings. In this work, we introduce a novel framework that is capable of generating new chemical structures while ensuring synthetic accessibility. Specifically, we introduce a postfix notation of synthetic pathways to represent molecules in chemical space. Then, we design a transformer-based model to translate molecular graphs into postfix notations of synthesis. We highlight the model's ability to: (a) perform bottom-up synthesis planning more accurately, (b) generate structurally similar, synthesizable analogs for unsynthesizable molecules proposed by generative models with their properties preserved, and (c) explore the local synthesizable chemical space around hit molecules.