Imaging systems have traditionally been designed to mimic the human eye and produce visually interpretable measurements.

We present a theoretical framework showing that popular LLM alignment methods--including RLHF and its variants--can be understood as divergence estimators between aligned (safe or preferred) and unaligned (harmful or less-preferred) distributions. This perspective explains the emergence of separation in the latent space between safe and harmful prompts after alignment. As an application of our general divergence framework, we propose KLDO, a novel KL divergence-based alignment method, and empirically validate its effectiveness. We further show that using compliance-refusal datasets, rather than standard preference-based datasets, leads to stronger separation and improved safety alignment. Finally, to quantify the separation effect, we propose a distance-based metric in the prompt representation space, which also acts as a statistically significant indicator for model safety.

Deep learning systems deployed in real-world applications often encounter data that is different from their in-distribution (ID).

The advent of single-cell Assay for Transposase-Accessible Chromatin using sequencing (scATAC-seq) offers an innovative perspective for deciphering regulatory mechanisms by assembling a vast repository of single-cell chromatin accessibility data. While foundation models have achieved significant success in single-cell transcriptomics, there is currently no foundation model for scATAC-seq that supports zero-shot high-quality cell identification and comprehensive multi-omics analysis simultaneously. Key challenges lie in the high dimensionality and sparsity of scATAC-seq data, as well as the lack of a standardized schema for representing open chromatin regions (OCRs). Here, we present ChromFound, a foundation model tailored for scATAC-seq. ChromFound utilizes a hybrid architecture and genome-aware tokenization to effectively capture genome-wide long contexts and regulatory signals from dynamic chromatin landscapes. Pretrained on 1.97 million cells from 30 tissues and 6 disease conditions, ChromFound demonstrates broad applicability across 6 diverse tasks. Notably, it achieves robust zero-shot performance in generating universal cell representations and exhibits excellent transferability in cell type annotation and cross-omics prediction. By uncovering enhancer-gene links undetected by existing computational methods, ChromFound offers a promising framework for understanding disease risk variants in the noncoding genome.

Membership inference attacks (MIAs) are used to test practical privacy of machine learning models. MIAs complement formal guarantees from differential privacy (DP) under a more realistic adversary model. We analyze MIA vulnerability of fine-tuned neural networks both empirically and theoretically, the latter using a simplified model of fine-tuning. We show that the vulnerability of non-DP models when measured as the attacker advantage at a fixed false positive rate reduces according to a simple power law as the number of examples per class increases. A similar power-law applies even for the most vulnerable points, but the dataset size needed for adequate protection of the most vulnerable points is very large.

Graph Neural Networks (GNNs) have achieved impressive results across diverse network modeling tasks, but accurately estimating uncertainty on graphs remains difficult--especially under distributional shifts. Unlike traditional uncertainty estimation, graph-based uncertainty must account for randomness arising from both the graph's structure and its label distribution, which adds complexity. In this paper, making an analogy between the evolution of a stochastic partial differential equation (SPDE) driven by Matérn Gaussian Process and message passing using GNN layers, we present a principled way to design a novel message passing scheme that incorporates spatial-temporal noises motivated by the Gaussian Process approach to SPDE. Our method simultaneously captures uncertainty across space and time and allows explicit control over the covariance kernel's smoothness, thereby enhancing uncertainty estimates on graphs with both low and high label informativeness. Our extensive experiments on Out-of-Distribution (OOD) detection on graph datasets with varying label informativeness demonstrate the soundness and superiority of our model to existing approaches.

Alignment faking in large language models presented a demonstration of Claude 3 Opus and Claude 3.5 Sonnet selectively complying with a helpfulonly training objective to prevent modification of their behavior outside of training. We expand this analysis to 25 models and find that only 5 (Claude 3 Opus, Claude 3.5 Sonnet, Llama 3 405B, Grok 3, Gemini 2.0 Flash) comply with harmful queries more when they infer they are in training than when they infer they are in deployment. First, we study the motivations of these 5 models. Results from perturbing details of the scenario suggest that only Claude 3 Opus's compliance gap is primarily and consistently motivated by trying to keep its goals. Second, we investigate why many chat models don't fake alignment. Our results suggest this is not entirely due to a lack of capabilities: many base models fake alignment some of the time, and post-training eliminates alignment-faking for some models and amplifies it for others.We investigate 5 hypotheses for how post-training may suppress alignment faking and find that variations in refusal behavior may account for a significant portion of differences in alignment faking.

Graphon models provide a flexible nonparametric framework for estimating latent connectivity probabilities in networks, enabling a range of downstream applications such as link prediction and data augmentation. However, accurate graphon estimation typically requires a large graph, whereas in practice, one often only observes a small-sized network. One approach to addressing this issue is to adopt a transfer learning framework, which aims to improve estimation in a small target graph by leveraging structural information from a larger, related source graph. In this paper, we propose a novel method, namely GTRANS, a transfer learning framework that integrates neighborhood smoothing and Gromov-Wasserstein optimal transport to align and transfer structural patterns between graphs. To prevent negative transfer, GTRANS includes an adaptive debiasing mechanism that identifies and corrects for target-specific deviations via residual smoothing. We provide theoretical guarantees on the stability of the estimated alignment matrix and demonstrate the effectiveness of GTRANS in improving the accuracy of target graph estimation through extensive synthetic and real data experiments. These improvements translate directly to enhanced performance in downstream applications, such as the graph classification task and the link prediction task.

In classification tasks, softmax functions are ubiquitously used as output activations to produce predictive probabilities. Such outputs only capture aleatoric uncertainty. To capture epistemic uncertainty, approximate Gaussian inference methods have been proposed. We develop a common formalism to describe such methods, which we view as outputting Gaussian distributions over the logit space. Predictives are then obtained as the expectations of the Gaussian distributions pushed forward through the softmax.

Hallucinations present a significant challenge in the development and evaluation of large language models (LLMs), directly affecting their reliability and accuracy. While notable advancements have been made in research on textual and visual hallucinations, there is still a lack of a comprehensive benchmark for evaluating auditory hallucinations in large audio language models (LALMs). To fill this gap, we introduce AHa-Bench, a systematic and comprehensive benchmark for audio hallucinations. Audio data, in particular, uniquely combines the multi-attribute complexity of visual data with the semantic richness of textual data, leading to auditory hallucinations that share characteristics with both visual and textual hallucinations. Based on the source of these hallucinations, AHa-Bench categorizes them into semantic hallucinations, acoustic hallucinations, and semantic-acoustic confusion hallucinations. In addition, we systematically evaluate seven opensource local perception language models (LALMs), demonstrating the challenges these models face in audio understanding, especially when it comes to jointly understanding semantic and acoustic information. Through the development of a comprehensive evaluation framework, AHa-Bench aims to enhance robustness of LALMs, fostering more reliable and nuanced audio understanding in LALMs.