ND
Nanqing Dong
cs.LGcs.AIcs.CVcs.CLbioinformaticsq-bio.QMcs.CRq-bio.BMcs.MADeep Learning
On Valency
published · living versionsW_gea2arze·v1 · currentpublished
PulmoWorld: An Asynchronous Multimodal Medical World Model for Longitudinal Pneumonia Dynamics
with Cheng Tang, Xinyu Zhang, Jiawei Chen, Minghui Zhang +12
1 version
Preprints & journals
56 papers in the corpus · 2017–2026DeepD enables efficient genome modeling and controllable long-context sequence generation across domains of life10.64898/2026.10.13.758170v1 · Lai, J., Xin, B., Wang, Z. et al.2026 · 0 citationsbioRxiv
GRAM: Correcting Frozen Time-Series Foundation Models via Graph-Retrieved Amplitude Memory2610.04827v1 · Xiaoyun Yu, Xiangfei Qiu, Yonggui Huang et al.2026 · 0 citationsarXiv
A General Harness for Protein Foundation Model Fitness Prediction2609.34654v1 · Yang Tan, Qijia Tian, Gangyu Sun et al.2026 · 0 citationsarXiv
Tool-Augmented On-Policy Distillation for LLM Domain Adaptation in Sequence-Based Omics Tasks2609.23435v1 · Jie Ying, Zhefan Wang, Zihong Chen et al.2026 · 0 citationsarXiv
EssTFNet: integration of adaptive time-frequency and DNA language models for interpretable human essential gene prediction.42398069 · Ye, Dong-Xin, Yuan, Shi-Shi, Su, Wei et al.2026 · 0 citationsBriefings in bioinformatics. 2026;27(4)
ViroBench: Benchmarking Nucleotide Foundation Models on Viral Genomics Tasks2605.25388v1 · Dongxin Ye, Fang Hu, Han Hu et al.2026 · 0 citationsarXiv
Knowledge-to-Verification: Exploring RLVR for LLMs in Knowledge-Intensive Domains2605.18261v1 · Zhonghang Yuan, Zhefan Wang, Fang Hu et al.2026 · 0 citationsarXiv
Project Imaging-X: A Survey of 1000+ Open-Access Medical Imaging Datasets for Foundation Model Development2603.27460v1 · Zhongying Deng, Cheng Tang, Ziyan Huang et al.2026 · 0 citationsarXiv
Self-evolving AI agents for protein discovery and directed evolution2603.27303v1 · Yang Tan, Lingrong Zhang, Mingchen Li et al.2026 · 0 citationsarXiv
Artificial intelligence revolutionizes cellular metabolic pathway reconstruction.41850996 · Zheng, Jiangbin, Xu, Xinyan, Yang, Qirong et al.2026 · 2 citationsTrends in biochemical sciences. 2026;51(4):316-319
MEMTS: Internalizing Domain Knowledge via Parameterized Memory for Retrieval-Free Domain Adaptation of Time Series Foundation Models2602.13783v1 · Xiaoyun Yu, Li fan, Xiangfei Qiu et al.2026 · 0 citationsarXiv
SciDataCopilot: An Agentic Data Preparation Framework for AGI-driven Scientific Discovery2602.09132v1 · Jiyong Rao, Yicheng Qiu, Jiahui Zhang et al.2026 · 0 citationsarXiv
Rank-and-Reason: Multi-Agent Collaboration Accelerates Zero-Shot Protein Mutation Prediction2602.00197v2 · Yang Tan, Yuanxi Yu, Can Wu et al.2026 · 1 citationarXiv
Revealing hierarchical structure of leaf venations via diffusion-refined label-efficient segmentation: Dataset and method.42038796 · Liu, Weizhen, Lan, Guangyu, Xing, Zhiwen et al.2026 · 1 citationPlant phenomics (Washington, D.C.). 2026;8(1):100164
Probing Scientific General Intelligence of LLMs with Scientist-Aligned Workflows2512.16969v1 · Wanghan Xu, Yuhao Zhou, Yifan Zhou et al.2025 · 0 citationsarXiv
A Mycelium Dataset with Edge-Precise Annotation for Semantic Segmentation.41372240 · Yuan, Qianguang, Liu, Weizhen, Liu, Yunfei et al.2025 · 0 citationsScientific data. 2025;12(1):2015
Bidirectional Representations Augmented Autoregressive Biological Sequence Generation2510.08169v3 · Xiang Zhang, Jiaqi Wei, Zijie Qiu et al.2025 · 0 citationsarXiv
A Survey of Scientific Large Language Models: From Data Foundations to Agent Frontiers2508.21148v2 · Ming Hu, Chenglong Ma, Wei Li et al.2025 · 1 citationarXiv
From AI for Science to Agentic Science: A Survey on Autonomous Scientific Discovery2508.14111v2 · Jiaqi Wei, Yuejin Yang, Xiang Zhang et al.2025 · 6 citationsarXiv
PRING: Rethinking Protein-Protein Interaction Prediction from Pairs to Graphs2507.05101v2 · Xinzhe Zheng, Hao Du, Fanding Xu et al.2025 · 2 citationsarXiv
Curriculum Learning for Biological Sequence Prediction: The Case of De Novo Peptide Sequencing2506.13485v1 · Xiang Zhang, Jiaqi Wei, Zijie Qiu et al.2025 · 0 citationsarXiv
SeedLLM·Rice: A large language model integrated with rice biological knowledge graph.40443033 · Yang, Fan, Kong, Huanjun, Ying, Jie et al.2025 · 27 citationsMolecular plant. 2025;18(7):1118-1129
GraphGen: Enhancing Supervised Fine-Tuning for LLMs with Knowledge-Driven Synthetic Data Generation2505.20416v1 · Zihong Chen, Wanli Jiang, Jinzhe Li et al.2025 · 2 citationsarXiv
SeedBench: A Multi-task Benchmark for Evaluating Large Language Models in Seed Science2505.13220v1 · Jie Ying, Zihong Chen, Zhefan Wang et al.2025 · 3 citationsarXiv
AI-Driven Automation Can Become the Foundation of Next-Era Science of Science Research2505.12039v1 · Renqi Chen, Haoyang Su, Shixiang Tang et al.2025 · 0 citationsarXiv
Structure-Informed Insights into Catalytic Mechanism and Multidomain Collaboration in α-Agarase CmAga.40127409 · You, Yuxian, Gan, Bee Koon, Luo, Min et al.2025 · 3 citationsJournal of agricultural and food chemistry. 2025;73(13):7975-7989
ROGRAG: A Robustly Optimized GraphRAG Framework2503.06474v2 · Zhefan Wang, Huanjun Kong, Jie Ying et al.2025 · 4 citationsarXiv
Deep generative model for protein subcellular localization prediction.40211979 · Yuan, Guo-Hua, Li, Jinzhe, Yang, Zejun et al.2025 · 7 citationsBriefings in bioinformatics. 2025;26(2)
Towards Efficient and Intelligent Laser Weeding: Method and Dataset for Weed Stem Detection2502.06255v1 · Dingning Liu, Jinzhe Li, Haoyang Su et al.2025 · 3 citationsarXiv
π-PrimeNovo: an accurate and efficient non-autoregressive deep learning model for de novo peptide sequencing.39747823 · Zhang, Xiang, Ling, Tianze, Jin, Zhi et al.2025 · 34 citationsNature communications. 2025;16(1):267
Biology-Instructions: A Dataset and Benchmark for Multi-Omics Sequence Understanding Capability of Large Language Models2412.19191v2 · Haonan He, Yuchen Ren, Yining Tang et al.2024 · 0 citationsarXiv
COMET: Benchmark for Comprehensive Biological Multi-omics Evaluation Tasks and Language Models2412.10347v1 · Yuchen Ren, Wenwei Han, Qianyuan Zhang et al.2024 · 1 citationarXiv
Many Heads Are Better Than One: Improved Scientific Idea Generation by A LLM-Based Multi-Agent System2410.09403v4 · Haoyang Su, Renqi Chen, Shixiang Tang et al.2024 · 19 citationsarXiv
Genomics-FM: Universal Foundation Model for Versatile andData-Efficient Functional Genomic Analysis10.1101/2024.07.16.603653v1 · Ye, P., Bai, W., Ren, Y. et al.2024 · 1 citationbioRxiv
Benchmarking Fish Dataset and Evaluation Metric in Keypoint Detection -- Towards Precise Fish Morphological Assessment in Aquaculture Breeding2405.12476v2 · Weizhen Liu, Jiayu Tan, Guangyu Lan et al.2024 · 8 citationsarXiv
Revealing Hierarchical Structure of Leaf Venations in Plant Science via Label-Efficient Segmentation: Dataset and Method2405.10041v1 · Weizhen Liu, Ao Li, Ze Wu et al.2024 · 0 citationsarXiv
An Embarrassingly Simple Approach to Enhance Transformer Performance in Genomic Selection for Crop Breeding2405.09585v3 · Renqi Chen, Wenwei Han, Haohao Zhang et al.2024 · 3 citationsarXiv
ContraNovo: A Contrastive Learning Approach to Enhance De Novo Peptide Sequencing2312.11584v1 · Zhi Jin, Sheng Xu, Xiang Zhang et al.2023 · 26 citationsarXiv
Smoke veil prior regularized surgical field desmoking without paired in-vivo data.38039894 · Wang, Congcong, Zhao, Meng, Zhou, Chengguang et al.2024 · 7 citationsComputers in biology and medicine. 2024;168:107761
zkFL: Zero-Knowledge Proof-based Gradient Aggregation for Federated Learning2310.02554v5 · Zhipeng Wang, Nanqing Dong, Jiahao Sun et al.2023 · 53 citationsarXiv
Defending Against Poisoning Attacks in Federated Learning with Blockchain2307.00543v3 · Nanqing Dong, Zhipeng Wang, Jiahao Sun et al.2023 · 47 citationsarXiv
Federated Partially Supervised Learning With Limited Decentralized Medical Images.37015445 · Dong, Nanqing, Kampffmeyer, Michael, Voiculescu, Irina et al.2023 · 31 citationsIEEE transactions on medical imaging. 2023;42(7):1944-1954
Label-Efficient Object Detection via Region Proposal Network Pre-Training2211.09022v2 · Nanqing Dong, Linus Ericsson, Yongxin Yang et al.2022 · 7 citationsarXiv
FLock: Defending Malicious Behaviors in Federated Learning with Blockchain2211.04344v1 · Nanqing Dong, Jiahao Sun, Zhipeng Wang et al.2022 · 3 citationsarXiv
Learning Underrepresented Classes from Decentralized Partially Labeled Medical Images2206.15353v1 · Nanqing Dong, Michael Kampffmeyer, Irina Voiculescu2022 · 7 citationsarXiv
Revisiting Vicinal Risk Minimization for Partially Supervised Multi-Label Classification Under Data Scarcity2204.08954v1 · Nanqing Dong, Jiayi Wang, Irina Voiculescu2022 · 12 citationsarXiv
Scalable Multi-Agent Reinforcement Learning for Residential Load Scheduling under Data Governance2110.02784v2 · Zhaoming Qin, Nanqing Dong, Di Liu et al.2021 · 5 citationsarXiv
Federated Contrastive Learning for Decentralized Unlabeled Medical Images2109.07504v1 · Nanqing Dong, Irina Voiculescu2021 · 64 citationsarXiv
Residual Contrastive Learning for Image Reconstruction: Learning Transferable Representations from Noisy Images2106.10070v2 · Nanqing Dong, Matteo Maggioni, Yongxin Yang et al.2021 · 7 citationsarXiv
Negational Symmetry of Quantum Neural Networks for Binary Pattern Classification2105.09580v2 · Nanqing Dong, Michael Kampffmeyer, Irina Voiculescu et al.2021 · 6 citationsarXiv
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