WenZhe Li | Searcharxiv

arXiv2026

Towards Characterizing Scientific Image Utility and Upgradability

Scientific images function as critical evidence in research communication, yet their integrity faces unprecedented threats from AI-generated content that introduces subtle but consequential errors. Existing evaluation paradigms prove inadequate: perceptual quality metrics poorly correlate with scientific validity, while language models lack domain-specific verification capabilities. To address this gap, we propose the \textbf{S}cientific \textbf{I}mage \textbf{U}tility and \textbf{U}pgradability \textbf{A}ssessment (\textbf{SIU$^2$A}) framework, which introduces two complementary dimensions for scientific image evaluation. \textbf{Utility} encompasses \textit{error detection} (identifying scientific inaccuracies) and \textit{correction feasibility} (assessing whether errors can be reliably repaired). \textbf{Upgradability} measures the quality of correction. We categorize scientific image corruption into four fundamental types: Detail Distortion, Incompleteness, False Content, and Entity Confusion. Based on this taxonomy, we construct SIU$^2$A-Benchmark, a dataset with expert annotations for error identification and repair. The framework implements a two-stage evaluation protocol: the \textit{Utility} stage evaluates error detection capability and repair instruction generation, while the \textit{Upgradability} stage assesses whether corrections faithfully restore scientific validity without compromising existing accurate information. Experiments reveal that current multimodal systems exhibit significant limitations in both scientific error assessment and faithful correction, exposing a fundamental gap between visual perception and scientific usability.

cs.CV↗

arXiv2025

HDTree: Generative Modeling of Cellular Hierarchies for Robust Lineage Inference

In single-cell research, tracing and analyzing high-throughput single-cell differentiation trajectories is crucial for understanding biological processes. Key to this is the robust modeling of hierarchical structures that govern cellular development. Traditional methods face limitations in computational cost, performance, and stability. VAE-based approaches have made strides but still require branch-specific network modules, limiting their scalability and stability, while often suffering from posterior collapse. To overcome these challenges, we introduce HDTree, a generative modeling framework designed for robust lineage inference. HDTree captures tree relationships within a hierarchical latent space using a unified hierarchical codebook and employs a quantized diffusion process to model continuous cell state transitions. By aligning the generative process with the Waddington landscape, this method not only improves stability and scalability but also enhances the biological plausibility of inferred lineages. HDTree's effectiveness is demonstrated through comparisons on both general-purpose and single-cell datasets, where it outperforms existing methods in lineage inference accuracy, reconstruction quality, and hierarchical consistency. These contributions enable accurate and efficient modeling of cellular differentiation paths, offering reliable insights for biological discovery.\footnote{Code is available at https://github.com/zangzelin/code\_HDTree\_icml.

cs.LG↗