arXiv subjects

Yinfan Wang

Publications and source records attributed to Yinfan Wang.

9 recordsLinked to original sources

arXiv2026

DianShi-RxnDB: A Large-Scale, Fine-Grained Organic Reaction Data Platform Built via a Fully Automated Pipeline for Researchers and AI Agents

High-quality structured organic reaction data are essential for developing artificial intelligence for chemistry (AI4Chem), yet much of this knowledge remains dispersed across patent text, images, and reaction schemes. We present DianShi-RxnDB, a large-scale, fine-grained organic reaction data platform built via a fully automated extraction and normalization pipeline integrating patent text, images, and reaction schemes. Its corpus covers organic synthesis patents from the USPTO and EPO published between 1976 and 2025, yielding approximately 24 million reaction instances, of which approximately 14.8 million (61.7%) pass automated qualification checks. Each instance represents a specific single-step experiment recording participants, roles, quantities, temperatures, reaction times, yields, experimental procedures, and provenance links to source patents. In a manual evaluation of 1,300 sampled qualified instances, the micro-averaged field-level accuracy was 92.95%. A matched comparison with Pistachio further indicated advantages in deduplicated record counts, representation granularity, and field-level exact agreement. The platform provides a Web research workbench for searching, filtering, comparing, and source-verifying records, and a Model Context Protocol (MCP) service offering AI agents composable structured retrieval tools. DianShi-RxnDB is available at https://dianshi.opendatalab.org.cn/ .

cs.CL↗

arXiv2026

MinerU.Chem: A High-Precision System for Optical Chemical Structure and Reaction Recognition

In organic chemistry papers and patents, molecular structures, reaction schemes, and experimental conditions are often presented as molecular structure depictions, reaction diagrams, and complex tables or figures. Such information is difficult for general-purpose document parsing systems to directly convert into machine-readable data. This limits data production for organic chemistry knowledge base construction and for AI for Chemistry tasks such as reaction prediction, retrosynthesis, condition recommendation, molecular property prediction, and drug molecule design. This report introduces MinerU-Chem, a document parsing system for organic chemistry literature integrated into the MinerU online platform. Built on top of MinerU's general document parsing pipeline, MinerU-Chem adds five chemistry-specific modules: chemistry relevance filtering, molecular structure detection, molecule identifier extraction, molecular structure recognition, and reaction scheme parsing. Together, these modules convert organic-chemistry-related image regions in documents into a Molecule Summary List and a Reaction Summary List. For molecular structure recognition, MinerU-Chem uses CARBON (Complex Atomic Representation and Bonding Object Notation) as its core representation. CARBON enables recognition results to preserve both the visual layout of the original image and complex chemical semantics, while supporting the export of standard downstream formats such as MolFile and SMILES. On the SMILES-evaluable subset of MolRecBench-Wild (N=2,392), MinerU-Chem's molecular structure recognition module achieves a SMILES exact-match accuracy of 93.02%, outperforming the best evaluated comparison system, GPT-5.6-Sol (74.87%), by 18.15 percentage points. The system has been integrated into the MinerU online platform and is available at https://mineru.net/OpenSourceTools/Extractor .

cs.CV↗

arXiv2026

Molecular Identifier Visual Prompt and Verifiable Reinforcement Learning for Chemical Reaction Diagram Parsing

Reaction diagram parsing (RxnDP) is critical for extracting chemical synthesis information from literature. Although recent Vision-Language Models (VLMs) have emerged as a promising paradigm to automate this complex visual reasoning task, their application is fundamentally bottlenecked by the inability to align visual chemical entities with pre-trained knowledge, alongside the inherent discrepancy between token-level training and reaction-level evaluation. To address these dual challenges, this work enhances VLM-based RxnDP from two complementary perspectives: prompting representation and learning paradigms. First, we propose Identifier as Visual Prompting (IdtVP), which leverages naturally occurring molecule identifiers (e.g., bold numerals like 1a) to activate the chemical knowledge acquired during VLM pre-training. IdtVP enables powerful zero-shot and out-of-distribution capabilities, outperforming existing prompting strategies. Second, to further optimize performance within fine-tuning paradigms, we introduce Re3-DAPO, a reinforcement learning algorithm that leverages verifiable rewards to directly optimize reaction-level metrics, thereby achieving consistent gains over standard supervised fine-tuning. Additionally, we release the ScannedRxn benchmark, comprising scanned historical reaction diagrams with real-world artifacts, to rigorously assess model robustness and out-of-distribution ability. Our contributions advance the accuracy and generalization of VLM-based reaction diagram parsing. We will release data, models, and code on GitHub.

cs.CV↗

arXiv2025

RxnCaption: Reformulating Reaction Diagram Parsing as Visual Prompt Guided Captioning

Large-scale chemical reaction datasets are crucial for AI research in chemistry. However, existing chemical reaction data often exist as images within papers, making them not machine-readable and unusable for training machine learning models. In response to this challenge, we propose the RxnCaption framework for the task of chemical Reaction Diagram Parsing (RxnDP). Our framework reformulates the traditional coordinate prediction driven parsing process into an image captioning problem, which Large Vision Language Models (LVLMs) handle naturally. We introduce a strategy termed BBox and Index as Visual Prompt (BIVP), which uses our state-of-the-art molecular detector, MolYOLO, to pre-draw molecular bounding boxes and indices directly onto the input image. This turns the downstream parsing into a natural-language description problem. Extensive experiments show that the BIVP strategy significantly improves structural extraction quality while simplifying model design. We further construct the RxnCaption-15k dataset, an order of magnitude larger than prior real-world literature benchmarks, with a balanced test subset across four layout archetypes. Experiments demonstrate that RxnCaption-VL achieves state-of-the-art performance on multiple metrics. We believe our method, dataset, and models will advance structured information extraction from chemical literature and catalyze broader AI applications in chemistry. We will release data, models, and code on GitHub.

cs.CV↗

arXiv2025

GTR-CoT: Graph Traversal as Visual Chain of Thought for Molecular Structure Recognition

Optical Chemical Structure Recognition (OCSR) is essential for converting molecular images into machine-readable formats. While recent vision-language models (VLMs) have shown promise, their image-captioning approach often struggles with complex molecular structures and inconsistent annotations. To address these issues, we introduce GTR-VL, featuring two key innovations: (1) the \textit{Graph Traversal as Visual Chain of Thought} mechanism that emulates human reasoning by incrementally parsing molecular graphs through sequential atom-bond predictions, and (2) the data-centric \textit{Faithfully Recognize What You've Seen} principle, which aligns abbreviated structures in images with their expanded annotations. For hand-drawn OCSR tasks, where datasets lack graph annotations and only provide final SMILES, we apply reinforcement learning using the GRPO method, introducing reward mechanisms like format reward, graph reward, and SMILES reward. This approach significantly enhances performance in hand-drawn recognition tasks through weak supervision. We developed GTR-1.3M, a large-scale instruction-tuning dataset with corrected annotations, and MolRec-Bench, the first benchmark for fine-grained evaluation of graph-parsing accuracy in OCSR. Our two-stage training scheme involves SFT training for printed images and the GRPO method for transferring capabilities to hand-drawn tasks. Experiments show that GTR-VL outperforms specialist models, chemistry-domain VLMs, and commercial VLMs on both printed and hand-drawn datasets.

cs.AI↗

arXiv2025

FingerVeinSyn-5M: A Million-Scale Dataset and Benchmark for Finger Vein Recognition

A major challenge in finger vein recognition is the lack of large-scale public datasets. Existing datasets contain few identities and limited samples per finger, restricting the advancement of deep learning-based methods. To address this, we introduce FVeinSyn, a synthetic generator capable of producing diverse finger vein patterns with rich intra-class variations. Using FVeinSyn, we created FingerVeinSyn-5M -- the largest available finger vein dataset -- containing 5 million samples from 50,000 unique fingers, each with 100 variations including shift, rotation, scale, roll, varying exposure levels, skin scattering blur, optical blur, and motion blur. FingerVeinSyn-5M is also the first to offer fully annotated finger vein images, supporting deep learning applications in this field. Models pretrained on FingerVeinSyn-5M and fine-tuned with minimal real data achieve an average 53.91\% performance gain across multiple benchmarks. The dataset is publicly available at: https://github.com/EvanWang98/FingerVeinSyn-5M.

cs.CV↗

arXiv2025

Evaluating Large Language Model with Knowledge Oriented Language Specific Simple Question Answering

We introduce KoLasSimpleQA, the first benchmark evaluating the multilingual factual ability of Large Language Models (LLMs). Inspired by existing research, we created the question set with features such as single knowledge point coverage, absolute objectivity, unique answers, and temporal stability. These questions enable efficient evaluation using the LLM-as-judge paradigm, testing both the LLMs' factual memory and self-awareness ("know what they don't know"). KoLasSimpleQA expands existing research in two key dimensions: (1) Breadth (Multilingual Coverage): It includes 9 languages, supporting global applicability evaluation. (2) Depth (Dual Domain Design): It covers both the general domain (global facts) and the language-specific domain (such as history, culture, and regional traditions) for a comprehensive assessment of multilingual capabilities. We evaluated mainstream LLMs, including traditional LLM and emerging Large Reasoning Models. Results show significant performance differences between the two domains, particularly in performance metrics, ranking, calibration, and robustness. This highlights the need for targeted evaluation and optimization in multilingual contexts. We hope KoLasSimpleQA will help the research community better identify LLM capability boundaries in multilingual contexts and provide guidance for model optimization. We will release KoLasSimpleQA at https://github.com/opendatalab/KoLasSimpleQA .

cs.CL↗

arXiv2025

Meta-rater: A Multi-dimensional Data Selection Method for Pre-training Language Models

The composition of pre-training datasets for large language models (LLMs) remains largely undisclosed, hindering transparency and efforts to optimize data quality, a critical driver of model performance. Current data selection methods, such as natural language quality assessments, diversity-based filters, and classifier-based approaches, are limited by single-dimensional evaluation or redundancy-focused strategies. To address these gaps, we propose four dimensions to evaluate data quality: professionalism, readability, reasoning, and cleanliness. We further introduce Meta-rater,a multi-dimensional data selection method that integrates these dimensions with existing quality metrics through learned optimal weightings. Meta-rater employs proxy models to train a regression model that predicts validation loss, enabling the identification of optimal combinations of quality scores. Experiments demonstrate that Meta-rater doubles convergence speed for 1.3B parameter models and improves downstream task performance by 3.23, with advantages that scale to models as large as 7.2B parameters. Our work establishes that holistic, multi-dimensional quality integration significantly outperforms conventional single-dimension approaches, offering a scalable paradigm for enhancing pre-training efficiency and model capability. To advance future research, we release scripts, data, and models at https://github.com/opendatalab/Meta-rater.

cs.CL↗

arXiv2025

OpenHuEval: Evaluating Large Language Model on Hungarian Specifics

We introduce OpenHuEval, the first benchmark for LLMs focusing on the Hungarian language and specifics. OpenHuEval is constructed from a vast collection of Hungarian-specific materials sourced from multiple origins. In the construction, we incorporated the latest design principles for evaluating LLMs, such as using real user queries from the internet, emphasizing the assessment of LLMs' generative capabilities, and employing LLM-as-judge to enhance the multidimensionality and accuracy of evaluations. Ultimately, OpenHuEval encompasses eight Hungarian-specific dimensions, featuring five tasks and 3953 questions. Consequently, OpenHuEval provides the comprehensive, in-depth, and scientifically accurate assessment of LLM performance in the context of the Hungarian language and its specifics. We evaluated current mainstream LLMs, including both traditional LLMs and recently developed Large Reasoning Models. The results demonstrate the significant necessity for evaluation and model optimization tailored to the Hungarian language and specifics. We also established the framework for analyzing the thinking processes of LRMs with OpenHuEval, revealing intrinsic patterns and mechanisms of these models in non-English languages, with Hungarian serving as a representative example. We will release OpenHuEval at https://github.com/opendatalab/OpenHuEval .

cs.CL↗