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Ying, Rex

  1. Inductive Representation Learning on Large Graphs
    2017/06/07 by William L. Hamilton, Hamilton, William L., Rex Ying +3 · 687 citations
    Biochemistry, Genetics and Molecular Biology · Computer Science · #Advanced Graph Neural Networks #Bioinformatics and Genomic Networks #FOS: Computer and information sciences #Gene expression and cancer classification #Machine Learning (cs.LG) #Machine Learning (stat.ML) #Social and Information Networks (cs.SI)
  2. Learning to Simulate Complex Physics with Graph Networks
    2020/02/21 by Álvaro Sánchez‐González, Sanchez-Gonzalez, Alvaro, Jonathan Godwin +9 · 84 citations
    Computer Science · Neuroscience · #Advanced Graph Neural Networks #Computational Physics (physics.comp-ph) #FOS: Computer and information sciences #FOS: Physical sciences #Functional Brain Connectivity Studies #Machine Learning (cs.LG) #Machine Learning (stat.ML) #Topic Modeling
  3. GNNExplainer: Generating Explanations for Graph Neural Networks
    2019/03/10 by Rex Ying, Ying, Rex, Dylan Bourgeois +7 · 61 citations
    Computer Science · #Advanced Graph Neural Networks #Adversarial Robustness in Machine Learning #Explainable Artificial Intelligence (XAI) #FOS: Computer and information sciences #Machine Learning (cs.LG) #Machine Learning (stat.ML)
  4. Hierarchical Graph Representation Learning with Differentiable Pooling
    2018/06/22 by Ying, Rex, You, Jiaxuan, Morris, Christopher +3 · 45 citations
    #FOS: Computer and information sciences #Machine Learning (cs.LG) #Machine Learning (stat.ML) #Neural and Evolutionary Computing (cs.NE) #Social and Information Networks (cs.SI)
  5. GraphRNN: Generating Realistic Graphs with Deep Auto-regressive Models
    2018/02/24 by Jiaxuan You, Rex Ying, You, Jiaxuan +7 · 50 citations
    Computer Science · #Graph Theory and Algorithms #Advanced Graph Neural Networks #Machine Learning and Data Classification
  6. Hyperbolic Graph Convolutional Neural Networks
    2019/10/28 by Ines Chami, Rex Ying, Chami, Ines +5 · 31 citations
    Computer Science · Physics and Astronomy · #Advanced Graph Neural Networks #Complex Network Analysis Techniques #FOS: Computer and information sciences #Graph Theory and Algorithms #Machine Learning (cs.LG) #Machine Learning (stat.ML)
  7. Representation Learning on Graphs: Methods and Applications
    2017/09/17 by Hamilton, William L., Ying, Rex, Leskovec, Jure · 25 citations
    #FOS: Computer and information sciences #Machine Learning (cs.LG) #Social and Information Networks (cs.SI)
  8. Graph Convolutional Policy Network for Goal-Directed Molecular Graph Generation
    2018/06/06 by Jiaxuan You, You, Jiaxuan, Bowen Liu +7 · 29 citations
    Biochemistry, Genetics and Molecular Biology · Computer Science · Materials Science · #Artificial Intelligence (cs.AI) #Computational Drug Discovery Methods #FOS: Computer and information sciences #Machine Learning (cs.LG) #Machine Learning (stat.ML) #Machine Learning in Materials Science #Protein Structure and Dynamics
  9. FOLIO: Natural Language Reasoning with First-Order Logic
    2022/09/02 by Simeng Han, Han, Simeng, Hailey Schoelkopf +58 · 27 citations
    Computer Science · #Topic Modeling #Natural Language Processing Techniques #Explainable Artificial Intelligence (XAI)
  10. TrustLLM: Trustworthiness in Large Language Models
    2024/01/01 by Yue Huang, Lichao Sun, Huang, Yue +136 · 30 citations
    Medicine · Computer Science · #Artificial Intelligence in Healthcare and Education #Privacy-Preserving Technologies in Data #Explainable Artificial Intelligence (XAI)
  11. Design Space for Graph Neural Networks
    2020/11/17 by You, Jiaxuan, Ying, Rex, Leskovec, Jure · 12 citations
    #Artificial Intelligence (cs.AI) #FOS: Computer and information sciences #Machine Learning (cs.LG) #Social and Information Networks (cs.SI)
  12. Identity-aware Graph Neural Networks
    2021/01/25 by Jiaxuan You, You, Jiaxuan, Jonathan M. Gomes-Selman +5 · 11 citations
    Computer Science · Neuroscience · Physics and Astronomy · #Advanced Graph Neural Networks #Functional Brain Connectivity Studies #Complex Network Analysis Techniques
  13. Neural Execution of Graph Algorithms
    2019/10/23 by Petar Veličković, Rex Ying, Veličković, Petar +7 · 10 citations
    Computer Science · #Advanced Graph Neural Networks #Adversarial Robustness in Machine Learning #Artificial Intelligence (cs.AI) #Data Structures and Algorithms (cs.DS) #FOS: Computer and information sciences #Machine Learning (cs.LG) #Machine Learning (stat.ML) #Machine Learning and Algorithms
  14. Position-aware Graph Neural Networks
    2019/06/11 by You, Jiaxuan, Ying, Rex, Leskovec, Jure · 6 citations
    #FOS: Computer and information sciences #Machine Learning (cs.LG) #Machine Learning (stat.ML) #Social and Information Networks (cs.SI)
  15. Multi-hop Attention Graph Neural Network
    2020/09/29 by Wang, Guangtao, Ying, Rex, Huang, Jing +1 · 6 citations
    #FOS: Computer and information sciences #Machine Learning (cs.LG) #Machine Learning (stat.ML)
  16. From Similarity to Superiority: Channel Clustering for Time Series Forecasting
    2024/03/31 by Jialin Chen, Chen, Jialin, Jan Eric Lenssen +13 · 11 citations
    Computer Science · #Time Series Analysis and Forecasting
  17. Relational Deep Learning: Graph Representation Learning on Relational Databases
    2023/12/07 by Fey, Matthias, Hu, Weihua, Huang, Kexin +6 · 8 citations
    #Databases (cs.DB) #FOS: Computer and information sciences #Machine Learning (cs.LG)
  18. GraphFramEx: Towards Systematic Evaluation of Explainability Methods for Graph Neural Networks
    2022/06/20 by Amara, Kenza, Ying, Rex, Zhang, Zitao +5 · 5 citations
    #Artificial Intelligence (cs.AI) #FOS: Computer and information sciences #Machine Learning (cs.LG)
  19. The Heterophilic Graph Learning Handbook: Benchmarks, Models, Theoretical Analysis, Applications and Challenges
    2024/07/12 by Sitao Luan, Chenqing Hua, Luan, Sitao +25 · 1 voice · 6 citations
    Computer Science · #Advanced Graph Neural Networks #FOS: Computer and information sciences #Machine Learning (cs.LG) #Social and Information Networks (cs.SI) #cs.LG #cs.SI
  20. MUDiff: Unified Diffusion for Complete Molecule Generation
    2023/04/28 by Chenqing Hua, Hua, Chenqing, Sitao Luan +11 · 5 citations
    Materials Science · Computer Science · Biochemistry, Genetics and Molecular Biology · #Machine Learning in Materials Science #Computational Drug Discovery Methods #Protein Structure and Dynamics
  21. MTBench: A Multimodal Time Series Benchmark for Temporal Reasoning and Question Answering
    2025/03/21 by Jialin Chen, Aosong Feng, Chen, Jialin +16 · 13 citations
    Computer Science · Decision Sciences · #Time Series Analysis and Forecasting #Topic Modeling #Stock Market Forecasting Methods
  22. Hypformer: Exploring Efficient Transformer Fully in Hyperbolic Space
    2024/07/01 by Meng‐Lin Yang, Harshit Verma, Yang, Menglin +9 · 7 citations
    Computer Science · #Artificial Intelligence (cs.AI) #Digital Filter Design and Implementation #FOS: Computer and information sciences #Machine Learning (cs.LG)
  23. TempME: Towards the Explainability of Temporal Graph Neural Networks via Motif Discovery
    2023/10/30 by Jialin Chen, Rex Ying, Chen, Jialin +1 · 5 citations
    Computer Science · Psychology · #Advanced Graph Neural Networks #Machine Learning in Healthcare #Mental Health Research Topics
  24. Neural Distance Embeddings for Biological Sequences
    2021/09/20 by Corso, Gabriele, Ying, Rex, Pándy, Michal +3 · 3 citations
    #FOS: Biological sciences #FOS: Computer and information sciences #Machine Learning (cs.LG) #Quantitative Methods (q-bio.QM)
  25. Low-Rank Adaptation for Foundation Models: A Comprehensive Review
    2024/12/31 by Menglin Yang, Yang, Menglin, Jialin Chen +18 · 8 citations
    Engineering · #Artificial Intelligence (cs.AI) #Dam Engineering and Safety #FOS: Computer and information sciences #I.2 #Machine Learning (cs.LG)
  26. DTGB: A Comprehensive Benchmark for Dynamic Text-Attributed Graphs
    2024/06/17 by Jiasheng Zhang, Zhang, Jiasheng, Jialin Chen +11 · 5 citations
    Computer Science · #Semantic Web and Ontologies #Advanced Graph Neural Networks #Logic, Reasoning, and Knowledge
  27. FusionRetro: Molecule Representation Fusion via In-Context Learning for Retrosynthetic Planning
    2022/09/30 by Songtao Liu, Liu, Songtao, Tu, Zhengkai +13 · 3 citations
    Biochemistry, Genetics and Molecular Biology · Computer Science · Materials Science · #Biomolecules (q-bio.BM) #Chemical Physics (physics.chem-ph) #Chemical Synthesis and Analysis #Computational Drug Discovery Methods #FOS: Biological sciences #FOS: Computer and information sciences #FOS: Physical sciences #Machine Learning (cs.LG) #Machine Learning in Materials Science #Quantitative Methods (q-bio.QM)
  28. Learning High-Order Relationships of Brain Regions
    2023/12/02 by Weikang Qiu, Huangrui Chu, Qiu, Weikang +11 · 4 citations
    Neuroscience · Computer Science · #Functional Brain Connectivity Studies #EEG and Brain-Computer Interfaces #Machine Learning in Healthcare
  29. Tele-LLMs: A Series of Specialized Large Language Models for Telecommunications
    2024/09/09 by Maatouk, Ali, Ampudia, Kenny Chirino, Ying, Rex +1 · 5 citations
    #Artificial Intelligence (cs.AI) #FOS: Computer and information sciences #Information Theory (cs.IT) #Machine Learning (cs.LG)
  30. Learning Graph Search Heuristics
    2022/12/07 by Pándy, Michal, Qiu, Weikang, Corso, Gabriele +4 · 3 citations
    #Artificial Intelligence (cs.AI) #FOS: Computer and information sciences #Machine Learning (cs.LG)
  31. Explaining Graph Neural Networks via Structure-aware Interaction Index
    2024/05/23 by Bui, Ngoc, Nguyen, Hieu Trung, Nguyen, Viet Anh +1 · 4 citations
    #FOS: Computer and information sciences #Machine Learning (cs.LG)
  32. Mixture-of-Personas Language Models for Population Simulation
    2025/04/07 by Bui, Ngoc, Nguyen, Hieu Trung, Kumar, Shantanu +4 · 9 citations
    #Computation and Language (cs.CL) #FOS: Computer and information sciences #Machine Learning (cs.LG)
  33. Local Augmentation for Graph Neural Networks
    2021/09/08 by Liu, Songtao, Ying, Rex, Dong, Hanze +6 · 2 citations
    #FOS: Computer and information sciences #Machine Learning (cs.LG)
  34. Modeling Heterogeneous Hierarchies with Relation-specific Hyperbolic Cones
    2021/10/28 by Yushi Bai, Rex Ying, Bai, Yushi +5 · 2 citations
    Biochemistry, Genetics and Molecular Biology · Computer Science · #Advanced Graph Neural Networks #Bayesian Modeling and Causal Inference #Biomedical Text Mining and Ontologies #FOS: Computer and information sciences #I.2.4 #Machine Learning (cs.LG) #Social and Information Networks (cs.SI) #Topic Modeling
  35. MindLLM: A Subject-Agnostic and Versatile Model for fMRI-to-Text Decoding
    2025/02/18 by Weikang Qiu, Qiu, Weikang, Zheng Huang +9 · 7 citations
    Computer Science · Neuroscience · #Neural Networks and Applications #EEG and Brain-Computer Interfaces #Neurobiology of Language and Bilingualism
  36. Large-Scale AI in Telecom: Charting the Roadmap for Innovation, Scalability, and Enhanced Digital Experiences
    2025/03/06 by Shahid, Adnan, Kliks, Adrian, Al-Tahmeesschi, Ahmed +132 · 9 citations
    #Artificial Intelligence (cs.AI) #Computation and Language (cs.CL) #FOS: Computer and information sciences #Networking and Internet Architecture (cs.NI)
  37. Thought Propagation: An Analogical Approach to Complex Reasoning with Large Language Models
    2023/10/06 by Yu, Junchi, He, Ran, Ying, Rex · 3 citations
    #Artificial Intelligence (cs.AI) #Computation and Language (cs.CL) #FOS: Computer and information sciences
  38. RNA-FrameFlow: Flow Matching for de novo 3D RNA Backbone Design
    2024/06/19 by Anand, Rishabh, Joshi, Chaitanya K., Morehead, Alex +7 · 3 citations
    #Biomolecules (q-bio.BM) #FOS: Biological sciences #FOS: Computer and information sciences #Genomics (q-bio.GN) #Machine Learning (cs.LG)
  39. Protein-Nucleic Acid Complex Modeling with Frame Averaging Transformer
    2024/06/13 by Tinglin Huang, Huang, Tinglin, Zhenqiao Song +5 · 3 citations
    Environmental Science · Biochemistry, Genetics and Molecular Biology · #Bacteriophages and microbial interactions #Gene expression and cancer classification
  40. Experience Retrieval-Augmentation with Electronic Health Records Enables Accurate Discharge QA
    2025/03/23 by Ou, Justice, Huang, Tinglin, Zhao, Yilun +3 · 5 citations
    #Artificial Intelligence (cs.AI) #Computation and Language (cs.CL) #FOS: Computer and information sciences #Information Retrieval (cs.IR)
  41. MuSe-GNN: Learning Unified Gene Representation From Multimodal Biological Graph Data
    2023/09/29 by Tianyu Liu, Liu, Tianyu, Yuge Wang +5 · 2 citations
    Biochemistry, Genetics and Molecular Biology · #Bioinformatics and Genomic Networks #Gene expression and cancer classification #Single-cell and spatial transcriptomics
  42. D4Explainer: In-Distribution GNN Explanations via Discrete Denoising Diffusion
    2023/10/30 by Jialin Chen, Shirley Wu, Chen, Jialin +5 · 2 citations
    Computer Science · Materials Science · #Advanced Graph Neural Networks #Artificial Intelligence (cs.AI) #Explainable Artificial Intelligence (XAI) #FOS: Computer and information sciences #Machine Learning (cs.LG) #Machine Learning in Materials Science
  43. Improving Graph Attention Networks with Large Margin-based Constraints
    2019/10/25 by Wang, Guangtao, Ying, Rex, Huang, Jing +1 · 1 citation
    #FOS: Computer and information sciences #Machine Learning (cs.LG) #Machine Learning (stat.ML)
  44. An Item is Worth a Prompt: Versatile Image Editing with Disentangled Control
    2024/03/07 by Aosong Feng, Weikang Qiu, Feng, Aosong +13 · 2 citations
    Computer Science · #Computer Graphics and Visualization Techniques #Advanced Vision and Imaging
  45. Lorentzian Residual Neural Networks
    2024/12/19 by Ning He, He, Neil, Meng‐Lin Yang +3 · 3 citations
    Computer Science · #FOS: Computer and information sciences #Machine Learning (cs.LG) #Neural Networks and Applications
  46. Implicit Reasoning in Large Language Models: A Comprehensive Survey
    2025/09/02 by Li, Jindong, Fu, Yali, Fan, Li +6 · 11 citations
    #Artificial Intelligence (cs.AI) #Computation and Language (cs.CL) #FOS: Computer and information sciences
  47. HELM: Hyperbolic Large Language Models via Mixture-of-Curvature Experts
    2025/05/30 by Neil He, He, Neil, R. S. Anand +13 · 6 citations
    Computer Science · #Natural Language Processing Techniques #Topic Modeling #Speech Recognition and Synthesis
  48. Hyperbolic Deep Learning for Foundation Models: A Survey
    2025/07/23 by He, Neil, Madhu, Hiren, Bui, Ngoc +2 · 5 citations
    #Artificial Intelligence (cs.AI) #FOS: Computer and information sciences #Machine Learning (cs.LG)
  49. P-FOLIO: Evaluating and Improving Logical Reasoning with Abundant Human-Written Reasoning Chains
    2024/10/11 by Han, Simeng, Yu, Aaron, Shen, Rui +13 · 2 citations
    #Artificial Intelligence (cs.AI) #Computation and Language (cs.CL) #FOS: Computer and information sciences
  50. LitFM: A Retrieval Augmented Structure-aware Foundation Model For Citation Graphs
    2024/09/05 by Zhang, Jiasheng, Chen, Jialin, Maatouk, Ali +6 · 2 citations
    #Digital Libraries (cs.DL) #FOS: Computer and information sciences #Social and Information Networks (cs.SI)
  51. Flow Matching for Collaborative Filtering
    2025/02/11 by Chengkai Liu, Liu, Chengkai, Y.P. Zhang +7 · 2 citations
    Computer Science · #Data Stream Mining Techniques #FOS: Computer and information sciences #Information Retrieval (cs.IR) #Music and Audio Processing #Time Series Analysis and Forecasting
  52. Hyperbolic Fine-tuning for Large Language Models
    2024/10/05 by Yang, Menglin, Feng, Aosong, Xiong, Bo +3 · 2 citations
    #Artificial Intelligence (cs.AI) #Computation and Language (cs.CL) #FOS: Computer and information sciences #Machine Learning (cs.LG) #Neural and Evolutionary Computing (cs.NE)
  53. Platonic Transformers: A Solid Choice For Equivariance
    2025/10/03 by Mohammad Mohaiminul Islam, R. S. Anand, Islam, Mohammad Mohaiminul +18 · 1 voice · 4 citations
    Physics and Astronomy · #Quantum Mechanics and Applications #Astro and Planetary Science #Origins and Evolution of Life
  54. Hyperbolic Representation Learning: Revisiting and Advancing
    2023/06/15 by Meng‐Lin Yang, Yang, Menglin, Min Zhou +7 · 1 citation
    Engineering · Medicine · #3D Shape Modeling and Analysis #Advanced Neuroimaging Techniques and Applications #Artificial Intelligence (cs.AI) #FOS: Computer and information sciences #Human Motion and Animation #Machine Learning (cs.LG)
  55. Representation Learning for Frequent Subgraph Mining
    2024/02/22 by Rex Ying, Ying, Rex, Tianyu Fu +9 · 1 citation
    Computer Science · #Data Mining Algorithms and Applications #FOS: Computer and information sciences #Machine Learning (cs.LG) #Rough Sets and Fuzzy Logic #Social and Information Networks (cs.SI)
  56. Position: Beyond Euclidean -- Foundation Models Should Embrace Non-Euclidean Geometries
    2025/04/11 by He, Neil, Liu, Jiahong, Zhang, Buze +6 · 2 citations
    #Artificial Intelligence (cs.AI) #FOS: Computer and information sciences #Machine Learning (cs.LG)
  57. HyperCore: The Core Framework for Building Hyperbolic Foundation Models with Comprehensive Modules
    2025/04/11 by Ning He, Meng‐Lin Yang, He, Neil +3 · 2 citations
    Environmental Science · #Artificial Intelligence (cs.AI) #CO2 Sequestration and Geologic Interactions #FOS: Computer and information sciences #Machine Learning (cs.LG)
  58. Online Detection of Anomalies in Temporal Knowledge Graphs with Interpretability
    2024/08/01 by Jiasheng Zhang, Rex Ying, Zhang, Jiasheng +3 · 1 citation
    Computer Science · Engineering · #Advanced Graph Neural Networks #Artificial Immune Systems Applications #Artificial Intelligence (cs.AI) #Databases (cs.DB) #FOS: Computer and information sciences #Machine Learning (cs.LG) #Rough Sets and Fuzzy Logic
  59. Scalable Generation of Spatial Transcriptomics from Histology Images via Whole-Slide Flow Matching
    2025/05/25 by Huang, Tinglin, Liu, Tianyu, Babadi, Mehrtash +2 · 2 citations
    #Computer Vision and Pattern Recognition (cs.CV) #FOS: Biological sciences #FOS: Computer and information sciences #Genomics (q-bio.GN)
  60. Reaction-conditioned De Novo Enzyme Design with GENzyme
    2024/11/10 by Hua, Chenqing, Lu, Jiarui, Liu, Yong +7 · 1 citation
    #Artificial Intelligence (cs.AI) #Biomolecules (q-bio.BM) #FOS: Biological sciences #FOS: Computer and information sciences
  61. HEIST: A Graph Foundation Model for Spatial Transcriptomics and Proteomics Data
    2025/06/11 by Madhu, Hiren, Rocha, João Felipe, Huang, Tinglin +3 · 1 citation
    #Cell Behavior (q-bio.CB) #FOS: Biological sciences #FOS: Computer and information sciences #Genomics (q-bio.GN) #Machine Learning (cs.LG)
  62. Efficient High-Resolution Time Series Classification via Attention Kronecker Decomposition
    2024/03/07 by Aosong Feng, Feng, Aosong, Jialin Chen +13 · 1 citation
    Computer Science · #Time Series Analysis and Forecasting
  63. SANDWICH: Towards an Offline, Differentiable, Fully-Trainable Wireless Neural Ray-Tracing Surrogate
    2024/11/13 by Y. J. Jin, Ali Maatouk, Jin, Yifei +9 · 1 citation
    Engineering · Medicine · #Advanced MRI Techniques and Applications #Artificial Intelligence (cs.AI) #FOS: Computer and information sciences #Networking and Internet Architecture (cs.NI) #Terahertz technology and applications #Wireless Body Area Networks
  64. Cache What Lasts: Token Retention for Memory-Bounded KV Cache in LLMs
    2025/12/03 by Ngoc Bui, Shubham Sharma, Bui, Ngoc +5 · 2 citations
    Computer Science · Materials Science · #Parallel Computing and Optimization Techniques #Advanced Neural Network Applications #Machine Learning in Materials Science
  65. TRACE: Grounding Time Series in Context for Multimodal Embedding and Retrieval
    2025/06/10 by Chen, Jialin, Zhao, Ziyu, Nurbek, Gaukhar +5 · 2 citations
    #FOS: Computer and information sciences #Machine Learning (cs.LG)