ICLR 2024 论文列表

Discovering mutations enhancing protein-protein interactions (PPIs) is critical for advancing biomedical research and developing improved therapeutics. While machine learning approaches have substantially advanced the field, they often struggle to generalize beyond training data in practical scenarios. The contributions of this work are three-fold. First, we construct PPIRef, the largest and non-redundant dataset of 3D protein-protein interactions, enabling effective large-scale learning. Second, we leverage the PPIRef dataset to pre-train PPIformer, a new SE(3)-equivariant model generalizing across diverse protein-binder variants. We fine-tune PPIformer to predict effects of mutations on protein-protein interactions via a thermodynamically motivated adjustment of the pre-training loss function. Finally, we demonstrate the enhanced generalization of our new PPIformer approach by outperforming other state-of-the-art methods on new, non-leaking splits of standard labeled PPI mutational data and independent case studies optimizing a human antibody against SARS-CoV-2 and increasing the thrombolytic activity of staphylokinase.

Improving the alignment of language models with human preferences remains an active research challenge. Previous approaches have primarily utilized online Reinforcement Learning from Human Feedback (RLHF). Recently, offline methods such as Sequence Likelihood Calibration (SLiC) and Direct Preference Optimization (DPO) have emerged as attractive alternatives, offering improvements in stability and scalability while maintaining competitive performance. SLiC refines its loss function using sequence pairs sampled from a supervised fine-tuned (SFT) policy, while DPO directly optimizes language models based on preference data, foregoing the need for a separate reward model. However, the maximum likelihood estimator (MLE) of the target optimal policy requires labeled preference pairs sampled from that policy. The absence of a reward model in DPO constrains its ability to sample preference pairs from the optimal policy. Meanwhile, SLiC can only sample preference pairs from the SFT policy. To address these limitations, we introduce a novel approach called Statistical Rejection Sampling Optimization (RSO) designed to source preference data from the target optimal policy using rejection sampling, enabling a more accurate estimation of the optimal policy. We also propose a unified framework that enhances the loss functions used in both SLiC and DPO from a preference modeling standpoint. Through extensive experiments across diverse tasks, we demonstrate that RSO consistently outperforms both SLiC and DPO as evaluated by both Large Language Models (LLMs) and human raters.

In human-written articles, we often leverage the subtleties of text style, such as bold and italics, to guide the attention of readers. These textual emphases are vital for the readers to grasp the conveyed information. When interacting with large language models (LLMs), we have a similar need -- steering the model to pay closer attention to user-specified information, e.g., an instruction. Existing methods, however, are constrained to process plain text and do not support such a mechanism. This motivates us to introduce PASTA -- Post-hoc Attention STeering Approach, a method that allows LLMs to read text with user-specified emphasis marks. To this end, PASTA identifies a small subset of attention heads and applies precise attention reweighting on them, directing the model attention to user-specified parts. Like prompting, PASTA is applied at inference time and does not require changing any model parameters. Experiments demonstrate that PASTA can substantially enhance an LLM's ability to follow user instructions or integrate new knowledge from user inputs, leading to a significant performance improvement on a variety of tasks, e.g., an average accuracy improvement of 22\% for LLAMA-7B. Our code is publicly available at https://github.com/QingruZhang/PASTA .

Supervised Fine-Tuning (SFT) on response demonstrations combined with Reinforcement Learning from Human Feedback (RLHF) constitutes a powerful paradigm for aligning LLM-based AI agents. However, a significant limitation of such an approach is its dependency on high-quality human annotations, making its application to intricate tasks challenging due to difficulties in obtaining consistent response demonstrations and in-distribution response preferences. This paper presents a novel approach, namely SALMON, to align base language models with minimal human supervision, using only a small set of human-defined principles, yet achieving superior performance. Central to our approach is an instructable reward model. Trained on synthetic preference data, this model can generate reward scores based on arbitrary human-defined principles. By merely adjusting these principles during the RL training phase, we gain full control over the preferences with the instructable reward model, subsequently influencing the behavior of the RL-trained policy models, and reducing the reliance on the collection of online human preferences. Applying our method to the LLaMA-2-70b base language model, we developed an AI assistant named Dromedary-2. With only 6 exemplars for in-context learning and 31 human-defined principles, Dromedary-2 significantly surpasses the performance of several state-of-the-art AI systems, including LLaMA-2-Chat-70b, on various benchmark datasets. We have open-sourced the code and model weights to encourage further research into aligning LLM-based AI agents with enhanced supervision efficiency, improved controllability, and scalable oversight.

Language Models (LMs) have greatly influenced diverse domains. However, their inherent limitation in comprehending 3D molecular structures has considerably constrained their potential in the biomolecular domain. To bridge this gap, we focus on 3D molecule-text interpretation, and propose 3D-MoLM: 3D-Molecular Language Modeling. Specifically, 3D-MoLM enables an LM to interpret and analyze 3D molecules by equipping the LM with a 3D molecular encoder. This integration is achieved by a 3D molecule-text projector, bridging the 3D molecular encoder’s representation space and the LM’s input space. Moreover, to enhance 3DMoLM’s ability of cross-modal molecular understanding and instruction following, we meticulously curated a 3D molecule-centric instruction tuning dataset – 3D-MoIT. Through 3D molecule-text alignment and 3D molecule-centric instruction tuning, 3D-MoLM establishes an integration of 3D molecular encoder and LM. It significantly surpasses existing baselines on downstream tasks, including moleculetext retrieval, molecule captioning, and more challenging open-text molecular QA tasks, especially focusing on 3D-dependent properties. We will release our codes and datasets at https://github.com/lsh0520/3D-MoLM.

Differentially private learning algorithms inject noise into the learning process. While the most common private learning algorithm, DP-SGD, adds independent Gaussian noise in each iteration, recent work on matrix factorization mechanisms has shown empirically that introducing correlations in the noise can greatly improve their utility. We characterize the asymptotic learning utility for any choice of the correlation function, giving precise analytical bounds for linear regression and as the solution to a convex program for general convex functions. We show, using these bounds, how correlated noise provably improves upon vanilla DP-SGD as a function of problem parameters such as the effective dimension and condition number. Moreover, our analytical expression for the near-optimal correlation function circumvents the cubic complexity of the semi-definite program used to optimize the noise correlation matrix in previous work. We validate these theoretical results with experiments on private deep learning. Our work matches or outperforms prior work while being efficient both in terms of computation and memory.

Diffusion models have demonstrated impressive generative capabilities, but their exposure bias problem, described as the input mismatch between training and sampling, lacks in-depth exploration. In this paper, we investigate the exposure bias problem in diffusion models by first analytically modelling the sampling distribution, based on which we then attribute the prediction error at each sampling step as the root cause of the exposure bias issue. Furthermore, we discuss potential solutions to this issue and propose an intuitive metric for it. Along with the elucidation of exposure bias, we propose a simple, yet effective, training-free method called Epsilon Scaling to alleviate the exposure bias. We show that Epsilon Scaling explicitly moves the sampling trajectory closer to the vector field learned in the training phase by scaling down the network output, mitigating the input mismatch between training and sampling. Experiments on various diffusion frameworks (ADM, DDIM, EDM, LDM, DiT, PFGM++) verify the effectiveness of our method. Remarkably, our ADM-ES, as a state-of-the-art stochastic sampler, obtains 2.17 FID on CIFAR-10 under 100-step unconditional generation. The code is at https://github.com/forever208/ADM-ES

Recent developments in offline reinforcement learning have uncovered the immense potential of diffusion modeling, which excels at representing heterogeneous behavior policies. However, sampling from diffusion policies is considerably slow because it necessitates tens to hundreds of iterative inference steps for one action. To address this issue, we propose to extract an efficient deterministic inference policy from critic models and pretrained diffusion behavior models, leveraging the latter to directly regularize the policy gradient with the behavior distribution’s score function during optimization. Our method enjoys powerful generative capabilities of diffusion modeling while completely circumventing the computationally intensive and time-consuming diffusion sampling scheme, both during training and evaluation. Extensive results on D4RL tasks show that our method boosts action sampling speed by more than 25 times compared with various leading diffusion-based methods in locomotion tasks, while still maintaining state-of-the-art performance.

Advances in machine learning are closely tied to the creation of datasets. While data documentation is widely recognized as essential to the reliability, reproducibility, and transparency of ML, we lack a systematic empirical understanding of current dataset documentation practices. To shed light on this question, here we take Hugging Face - one of the largest platforms for sharing and collaborating on ML models and datasets - as a prominent case study. By analyzing all 7,433 dataset documentation on Hugging Face, our investigation provides an overview of the Hugging Face dataset ecosystem and insights into dataset documentation practices, yielding 5 main findings: (1) The dataset card completion rate shows marked heterogeneity correlated with dataset popularity: While 86.0\% of the top 100 downloaded dataset cards fill out all sections suggested by Hugging Face community, only 7.9\% of dataset cards with no downloads complete all these sections. (2) A granular examination of each section within the dataset card reveals that the practitioners seem to prioritize Dataset Description and Dataset Structure sections, accounting for 36.2\% and 33.6\% of the total card length, respectively, for the most downloaded datasets. In contrast, the Considerations for Using the Data section receives the lowest proportion of content, accounting for just 2.1\% of the text. (3) By analyzing the subsections within each section and utilizing topic modeling to identify key topics, we uncover what is discussed in each section, and underscore significant themes encompassing both technical and social impacts, as well as limitations within the Considerations for Using the Data section. (4) Our findings also highlight the need for improved accessibility and reproducibility of datasets in the Usage sections. (5) In addition, our human annotation evaluation emphasizes the pivotal role of comprehensive dataset content in shaping individuals' perceptions of a dataset card's overall quality. Overall, our study offers a unique perspective on analyzing dataset documentation through large-scale data science analysis and underlines the need for more thorough dataset documentation in machine learning research.

Diffusion models have attracted significant attention due to the remarkable ability to create content and generate data for tasks like image classification. However, the usage of diffusion models to generate the high-quality object detection data remains an underexplored area, where not only image-level perceptual quality but also geometric conditions such as bounding boxes and camera views are essential. Previous studies have utilized either copy-paste synthesis or layout-to-image (L2I) generation with specifically designed modules to encode the semantic layouts. In this paper, we propose the GeoDiffusion, a simple framework that can flexibly translate various geometric conditions into text prompts and empower pre-trained text-to-image (T2I) diffusion models for high-quality detection data generation. Unlike previous L2I methods, our GeoDiffusion is able to encode not only the bounding boxes but also extra geometric conditions such as camera views in self-driving scenes. Extensive experiments demonstrate GeoDiffusion outperforms previous L2I methods while maintaining 4x training time faster. To the best of our knowledge, this is the first work to adopt diffusion models for layout-to-image generation with geometric conditions and demonstrate that L2I-generated images can be beneficial for improving the performance of object detectors.

Designing effective positional encodings for graphs is key to building powerful graph transformers and enhancing message-passing graph neural networks. Although widespread, using Laplacian eigenvectors as positional encodings faces two fundamental challenges: (1) *Non-uniqueness*: there are many different eigendecompositions of the same Laplacian, and (2) *Instability*: small perturbations to the Laplacian could result in completely different eigenspaces, leading to unpredictable changes in positional encoding. Despite many attempts to address non-uniqueness, most methods overlook stability, leading to poor generalization on unseen graph structures. We identify the cause of instability to be the use of "hard partition'' of eigenspaces. Hence, we introduce Stable and Expressive Positional Encodings (SPE), an architecture for processing eigenvectors that uses eigenvalues to ``softly partition'' eigenspaces. SPE is the first architecture that is (1) provably stable, and (2) universally expressive for basis invariant functions whilst respecting all symmetries of eigenvectors. Besides guaranteed stability, we prove that SPE is at least as expressive as existing methods, and highly capable of counting graph structures. Finally, we evaluate the effectiveness of our method on molecular property prediction, and out-of-distribution generalization tasks, finding improved generalization compared to existing positional encoding methods. Our code is available at https://github.com/Graph-COM/SPE.

Language modeling at scale has proven very effective and brought unprecedented success to natural language models. Many typical representatives, especially decoder-only models, e.g., BLOOM and LLaMA, and encoder-decoder models, e.g., Flan-T5 and AlexaTM, have exhibited incredible instruction-following capabilities while keeping strong task completion ability. These large language models can achieve superior performance in various tasks and even yield emergent capabilities, e.g., reasoning and universal generalization. Though the above two paradigms are mainstream and well explored, the potential of the BERT family, which are encoder-only based models and have ever been one of the most representative pre-trained models, also deserves attention, at least should be discussed. In this work, we adopt XML-R to explore the effectiveness of the BERT family for instruction following and zero-shot learning. We first design a simple yet effective strategy to utilize the encoder-only models for generation tasks and then conduct multi-task instruction tuning. Experimental results demonstrate that our fine-tuned model, Instruct-XMLR, outperforms Bloomz on all evaluation tasks and achieves comparable performance with mT0 on most tasks. Surprisingly, Instruct-XMLR also possesses strong task and language generalization abilities, indicating that Instruct-XMLR can also serve as a good instruction follower and zero-shot learner. Besides, Instruct-XMLR can accelerate decoding due to its non-autoregressive generation manner, achieving around 3 times speedup compared with current autoregressive large language models. Although we also witnessed several limitations through our experiments, such as the performance decline in long-generation tasks and the shortcoming of length prediction, Instruct-XMLR can still become a good member of the family of current large language models.

Image denoisers have been shown to be powerful priors for solving inverse problems in imaging. In this work, we introduce a generalization of these methods that allows any image restoration network to be used as an implicit prior. The proposed method uses priors specified by deep neural networks pre-trained as general restoration operators. The method provides a principled approach for adapting state-of-the-art restoration models for other inverse problems. Our theoretical result analyzes its convergence to a stationary point of a global functional associated with the restoration operator. Numerical results show that the method using a super-resolution prior achieves state-of-the-art performance both quantitatively and qualitatively. Overall, this work offers a step forward for solving inverse problems by enabling the use of powerful pre-trained restoration models as priors.

This paper presents Tag2Text, a vision language pre-training (VLP) framework, which introduces image tagging into vision-language models to guide the learning of visual-linguistic features. In contrast to prior works which utilize object tags either manually labeled or automatically detected with a limited detector, our approach utilizes tags parsed from its paired text to learn an image tagger and meanwhile provides guidance to vision-language models. Given that, Tag2Text can utilize large-scale annotation-free image tags in accordance with image-text pairs, and provides more diverse tag categories beyond objects. Strikingly, Tag2Text showcases the ability of a foundational image tagging model, with superior zero-shot performance even comparable to full supervision manner. Moreover, by leveraging tagging guidance, Tag2Text effectively enhances the performance of vision-language models on both generation-based and alignment-based tasks. Across a wide range of downstream benchmarks, Tag2Text achieves state-of-the-art results with similar model sizes and data scales, demonstrating the efficacy of the proposed tagging guidance.

Test-time adaptation (TTA) aims to adapt a pre-trained model from a source domain to a target domain only using online unlabeled target data during testing, without accessing to the source data or modifying the original training process. Among the various TTA methods, pseudo-labeling has gained popularity. However, the presence of incorrect pseudo-labels can hinder the effectiveness of target domain adaptation. To overcome this challenge, we propose a novel TTA method, called PROtotype GRAph Model based pseudo-label learning (PROGRAM). PROGRAM consists of two key components: (1) Prototype Graph Model (PGM) for reliable pseudo-label generation; (2) Robust Self-Training (RST) for test-time adaptation with noisy pseudo-labels. PGM constructs the graph using prototypes and test samples, facilitating effective message passing among them to generate more reliable pseudo-labels. RST combines the advantages of consistency regularization and pseudo-labeling to achieve robust target domain adaptation in the presence of noisy pseudo-labels. Our proposed PROGRAM can be easily integrated into existing baselines, resulting in consistent improvement. Extensive experiments show that our PROGRAM outperforms the existing TTA methods on multiple domain generalization and image corruption benchmarks.

In-context learning (ICL) is an important capability of Large Language Models (LLMs), enabling these models to dynamically adapt based on specific, in-context exemplars, thereby improving accuracy and relevance. However, LLM's responses may leak the sensitive private information contained in in-context exemplars. To address this challenge, we propose Differentially Private In-context Learning (DP-ICL), a general paradigm for privatizing ICL tasks. The key idea for DP-ICL paradigm is generating differentially private responses through a noisy consensus among an ensemble of LLM's responses based on disjoint exemplar sets. Based on the general paradigm of DP-ICL, we instantiate several techniques showing how to privatize ICL for text classification and language generation. We experiment on four text classification benchmarks and two language generation tasks, and our empirical findings suggest that our DP-ICL achieves a strong utility-privacy tradeoff.

Research in document image understanding is hindered by limited high-quality document data. To address this, we introduce ADOPD, a comprehensive dataset for document page decomposition. ADOPD stands out with its data-driven approach for document taxonomy discovery during data collection, complemented by dense annotations. Our approach integrates large-scale pretrained models with a human-in-the-loop process to guarantee diversity and balance in the resulting data collection. Leveraging our data-driven document taxonomy, we collect and densely annotate document images, addressing four document image understanding tasks: Doc2Mask, Doc2Box, Doc2Tag, and Doc2Seq. Specifically, for each image, the annotations include human-labeled entity masks, text bounding boxes, as well as automatically generated tags and captions that have been manually cleaned. We conduct comprehensive experimental analyses to validate our data and assess the four tasks using various models. We envision ADOPD as a foundational dataset with the potential to drive future research in document understanding.

Alignment tuning has become the de facto standard practice for enabling base large language models (LLMs) to serve as open-domain AI assistants. The alignment tuning process typically involves instruction learning through supervised fine-tuning (SFT) and preference tuning via reinforcement learning from human feedback (RLHF). A recent study, LIMA (Zhou et al., 2023), shows that using merely 1K examples for SFT can achieve significant alignment performance as well, suggesting that the effect of alignment tuning might be "superficial." This raises questions about how exactly the alignment tuning transforms a base LLM. We analyze the effect of alignment tuning by examining the token distribution shift between base LLMs and their aligned counterparts (e.g., Llama-2 and Llama-2-chat). Our findings reveal that base LLMs and their alignment-tuned versions perform nearly identically in decoding on the majority of token positions (i.e., they share the top-ranked tokens). Most distribution shifts occur with stylistic tokens (e.g., discourse markers, safety disclaimers). This direct evidence strongly supports the hypothesis that alignment tuning primarily learns to adopt the language style of AI assistants, and that the knowledge required for answering user queries predominantly comes from the base LLMs themselves. Based on these findings, we rethink the alignment of LLMs by posing the research question: how effectively can we align base LLMs without SFT or RLHF? To address this, we introduce a simple, tuning-free alignment method, URIAL (Untuned LLMs with Restyled In-context Alignment). URIAL achieves effective alignment purely through in-context learning (ICL) with base LLMs, requiring as few as three constant stylistic examples and a system prompt. We conduct a fine-grained and interpretable evaluation on a diverse set of examples, named just-eval-instruct. Results demonstrate that base LLMs with URIAL can match or even surpass the performance of LLMs aligned with SFT (Mistral-7b-Instruct) or SFT+RLHF (Llama-2-70b-chat). We show that the gap between tuning-free and tuning-based alignment methods can be significantly reduced through strategic prompting and ICL. Our findings on the superficial nature of alignment tuning and results with URIAL suggest that deeper analysis and theoretical understanding of alignment is crucial to future LLM research.

How to conduct teacher training for knowledge distillation is still an open problem. It has been widely observed that a best-performing teacher does not necessarily yield the best-performing student, suggesting a fundamental discrepancy between the current teacher training practice and the ideal teacher training strategy. To fill this gap, we explore the feasibility of training a teacher that is oriented toward student performance with empirical risk minimization (ERM). Our analyses are inspired by the recent findings that the effectiveness of knowledge distillation hinges on the teacher’s capability to approximate the true label distribution of training inputs. We theoretically establish that ERM minimizer can approximate the true label distribution of training data as long as the feature extractor of the learner network is Lipschitz continuous and is robust to feature transformations. In light of our theory, we propose a teacher training method SoTeacher which incorporates Lipschitz regularization and consistency regularization into ERM. Experiments on benchmark datasets using various knowledge distillation algorithms and teacher-student pairs confirm that SoTeacher can improve student accuracy consistently.