arXiv subjects

Qiongyu Zhang

Publications and source records attributed to Qiongyu Zhang.

3 recordsLinked to original sources

arXiv2026

Elucidating the Space of Enzymatic Reaction: A Unified Benchmark and Pretrained Model

Existing reaction models primarily learn molecular transformations, whereas enzy- matic reactions depend jointly on molecular structure and catalytic function. We formulate this problem as learning an enzymatic reaction space linking reactants, products, and Enzyme Commission (EC) annotations. To characterize this space, we introduce VenusRX-Bench, a unified benchmark for forward reaction prediction, single-step retrosynthesis, and EC-number prediction. VenusRX-Bench integrates reactions from multiple biochemical databases with standardized curation, leakage- controlled splits, and consistent evaluation. Benchmarking representative chemical and enzymatic models reveals a clear chemical-to-enzymatic domain gap, driven by limited domain data, catalytic-context dependency, and the difficulty of modeling large biomolecular structures. To bridge this gap, we develop VenusRX, a unified T5-style sequence-to-sequence model for enzymatic reactions. VenusRX jointly learns forward prediction, ret- rosynthesis, and reaction reconstruction, with two-stage training on millions of template-expanded reactions followed by real biochemical reactions. In addition, optional EC conditioning incorporates catalytic context, while Molecule Library- Constrained Decoding improves the generation of complex biomolecules. Across benchmark tasks and challenging generalization splits, VenusRX achieves the best or competitive performance on most evaluated settings over representative chem- ical and enzymatic baselines. Moreover, EC information consistently improves reaction prediction, while learned reaction representations support accurate EC prediction, revealing a bidirectional relationship between reaction structure and catalytic function. Together, VenusRX-Bench and VenusRX provide a unified framework for elucidating and modeling enzymatic reaction space

q-bio.QM↗

arXiv2026

PRM-as-a-Judge: A Dense Evaluation Paradigm for Fine-Grained Robotic Auditing

Current robotic evaluation is still largely dominated by binary success rates, which collapse rich execution processes into a single outcome and obscure critical qualities such as progress, efficiency, and stability. To address this limitation, we propose PRM-as-a-Judge, a dense evaluation paradigm that leverages Process Reward Models (PRMs) to audit policy execution directly from trajectory videos by estimating task progress from observation sequences. Central to this paradigm is the OPD (Outcome-Process-Diagnosis) metric system, which explicitly formalizes execution quality via a task-aligned progress potential. We characterize dense robotic evaluation through two axiomatic properties: macro-consistency, which requires additive and path-consistent aggregation, and micro-resolution, which requires sensitivity to fine-grained physical evolution. Under this formulation, potential-based PRM judges provide a natural instantiation of dense evaluation, with macro-consistency following directly from the induced scalar potential. We empirically validate the micro-resolution property using RoboPulse, a diagnostic benchmark specifically designed for probing micro-scale progress discrimination, where several trajectory-trained PRM judges outperform discriminative similarity-based methods and general-purpose foundation-model judges. Finally, leveraging PRM-as-a-Judge and the OPD metric system, we conduct a structured audit of mainstream policy paradigms across long-horizon tasks, revealing behavioral signatures and failure modes that are invisible to outcome-only metrics.

cs.RO↗

arXiv2026

Action-Sketcher: From Reasoning to Action via Visual Sketches for Long-Horizon Robotic Manipulation

Long-horizon robotic manipulation is increasingly important for real-world deployment, requiring spatial disambiguation in complex layouts and temporal resilience under dynamic interaction. However, existing end-to-end and hierarchical Vision-Language-Action (VLA) policies often rely on text-only cues while keeping plan intent latent, which undermines referential grounding in cluttered or underspecified scenes, impedes effective task decomposition of long-horizon goals with close-loop interaction, and limits causal explanation by obscuring the rationale behind action choices. To address these issues, we first introduce Visual Sketch, an implausible visual intermediate that renders points, boxes, arrows, and typed relations in the robot's current views to externalize spatial intent, connect language to scene geometry. Building on Visual Sketch, we present Action-Sketcher, a VLA framework that operates in a cyclic See-Think-Sketch-Act workflow coordinated by adaptive token-gated strategy for reasoning triggers, sketch revision, and action issuance, thereby supporting reactive corrections and human interaction while preserving real-time action prediction. To enable scalable training and evaluation, we curate diverse corpus with interleaved images, text, Visual Sketch supervision, and action sequences, and train Action-Sketcher with a multi-stage curriculum recipe that combines interleaved sequence alignment for modality unification, language-to-sketch consistency for precise linguistic grounding, and imitation learning augmented with sketch-to-action reinforcement for robustness. Extensive experiments on cluttered scenes and multi-object tasks, in simulation and on real-world tasks, show improved long-horizon success, stronger robustness to dynamic scene changes, and enhanced interpretability via editable sketches and step-wise plans. Project website: https://action-sketcher.github.io

cs.RO↗