The Fudan Participation in the 2015 BioASQ Challenge: Large-scale Biomedical Semantic Indexing and Question Answering. - Shengwen Peng; Ronghui You; Zhikai Xie; Beichen Wang; Yanchun Zhang; Shanfeng Zhu (CLEF (Working Notes), 2015)

Cache-oblivious wavefront: improving parallelism of recursive dynamic programming algorithms without losing cache-efficiency. - Yuan Tang; Ronghui You; Haibin Kan; Jesmin Jahan Tithi; Pramod Ganapathi; Rezaul Alam Chowdhury (PPoPP, 2015)

FDUMedSearch at TREC 2015 Clinical Decision Support Track. - Ronghui You; Shengwen Peng; Shanfeng Zhu; Yuanjie Zhou (TREC, 2015)

DeepMeSH: deep semantic representation for improving large-scale MeSH indexing. - Shengwen Peng; Ronghui You; Hongning Wang; Chengxiang Zhai; Hiroshi Mamitsuka; Shanfeng Zhu (Bioinform., 2016)

DeepText2Go: Improving large-scale protein function prediction with deep semantic text representation. - Ronghui You; Shanfeng Zhu (BIBM, 2017)

POSTER: STAR (Space-Time Adaptive and Reductive) Algorithms for Real-World Space-Time Optimality. - Yuan Tang; Ronghui You (PPoPP, 2017)

GOLabeler: improving sequence-based large-scale protein function prediction by learning to rank. - Ronghui You; Zihan Zhang; Yi Xiong 002; Fengzhu Sun; Hiroshi Mamitsuka; Shanfeng Zhu (Bioinform., 2018)

AttentionXML: Extreme Multi-Label Text Classification with Multi-Label Attention Based Recurrent Neural Networks. - Ronghui You; Suyang Dai; Zihan Zhang; Hiroshi Mamitsuka; Shanfeng Zhu (CoRR, 2018)

DeepDock: Enhancing Ligand-protein Interaction Prediction by a Combination of Ligand and Structure Information. - Zhirui Liao; Ronghui You; Xiaodi Huang; Xiaojun Yao; Tao Huang; Shanfeng Zhu (BIBM, 2019)

AttentionXML: Label Tree-based Attention-Aware Deep Model for High-Performance Extreme Multi-Label Text Classification. - Ronghui You; Zihan Zhang; Ziye Wang; Suyang Dai; Hiroshi Mamitsuka; Shanfeng Zhu (NeurIPS, 2019)

HAXMLNet: Hierarchical Attention Network for Extreme Multi-Label Text Classification. - Ronghui You; Zihan Zhang; Suyang Dai; Shanfeng Zhu (CoRR, 2019)

NetGO: improving large-scale protein function prediction with massive network information. - Ronghui You; Shuwei Yao; Yi Xiong 002; Xiaodi Huang; Fengzhu Sun; Hiroshi Mamitsuka; Shanfeng Zhu (Nucleic Acids Res., 2019)

FullMeSH: improving large-scale MeSH indexing with full text. - Suyang Dai; Ronghui You; Zhiyong Lu; Xiaodi Huang; Hiroshi Mamitsuka; Shanfeng Zhu (Bioinform., 2020)

BERTMeSH: deep contextual representation learning for large-scale high-performance MeSH indexing with full text. - Ronghui You; Yuxuan Liu; Hiroshi Mamitsuka; Shanfeng Zhu (Bioinform., 2021)

DeepGraphGO: graph neural network for large-scale, multispecies protein function prediction. - Ronghui You; Shuwei Yao; Hiroshi Mamitsuka; Shanfeng Zhu (Bioinform., 2021)

NetGO 2.0: improving large-scale protein function prediction with massive sequence, text, domain, family and network information. - Shuwei Yao; Ronghui You; Shaojun Wang; Yi Xiong 002; Xiaodi Huang; Shanfeng Zhu (Nucleic Acids Res., 2021)

DeepMHCII: a novel binding core-aware deep interaction model for accurate MHC-II peptide binding affinity prediction. - Ronghui You; Wei Qu; Hiroshi Mamitsuka; Shanfeng Zhu (Bioinform., 2022)

NetGO 3.0: Protein Language Model Improves Large-scale Functional Annotations. - Shaojun Wang; Ronghui You; Yunjia Liu; Yi Xiong 002; Shanfeng Zhu (Genom. Proteom. Bioinform., 2023)

DeepMHCI: an anchor position-aware deep interaction model for accurate MHC-I peptide binding affinity prediction. - Wei Qu; Ronghui You; Hiroshi Mamitsuka; Shanfeng Zhu (Bioinform., 2023)

Near-Optimal Resilient Aggregation Rules for Distributed Learning Using 1-Center and 1-Mean Clustering with Outliers. - Yuhao Yi; Ronghui You; Hong Liu; Changxin Liu; Yuan Wang; Jiancheng Lv (AAAI, 2024)

LiD-FL: Towards List-Decodable Federated Learning. - Hong Liu; Liren Shan; Han Bao; Ronghui You; Yuhao Yi; Jiancheng Lv (AAAI, 2025)