STONY BROOK MEDICINE

Department of Biomedical Informatics

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FACULTY PROFILE · REVIEW PREVIEW

Tengfei Ma

Department of Biomedical Informatics

Publications

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Resting Neurons, Active Insights: Improving Input Sparsification for Large Language Models

ORCID match The 43rd International Conference on Machine Learning (ICML) · 2026 · Found in ORCID

Choose for “Resting Neurons, Active Insights: Improving Input Sparsification for Large Language Models”

Intra-nanoparticle Drug-protein Interactions Mediate Sequential Therapeutic Release

ORCID match bioRxiv · 2026 · Found in ORCID

Choose for “Intra-nanoparticle Drug-protein Interactions Mediate Sequential Therapeutic Release”

HyperGuide: Hyperbolic Guidance for Efficient Multi-Step Reasoning in Large Language Models

ORCID match arXiv preprint arXiv:2605.24140 · 2026 · Found in ORCID

Choose for “HyperGuide: Hyperbolic Guidance for Efficient Multi-Step Reasoning in Large Language Models”

HypEHR: Hyperbolic Modeling of Electronic Health Records for Efficient Question Answering

ORCID match ACL2026 Findings · 2026 · Found in ORCID

Choose for “HypEHR: Hyperbolic Modeling of Electronic Health Records for Efficient Question Answering”

GraphPL: Leveraging GNN for Efficient and Robust Modalities Imputation in Patchwork Learning

ORCID match ICASSP 2026-2026 IEEE International Conference on Acoustics, Speech and Signal Processing (ICASSP) · 2026 · Found in ORCID

Choose for “GraphPL: Leveraging GNN for Efficient and Robust Modalities Imputation in Patchwork Learning”

Graph concept bottleneck models

ORCID match Transactions on Machine Learning Research (TMLR) · 2026 · Found in ORCID

Choose for “Graph concept bottleneck models”

Domain-Specific Data Synthesis for LLMs through Minimal Sufficient Representation Learning

ORCID match Proceedings of the 32nd ACM SIGKDD Conference on Knowledge Discovery and Data Mining V. 2 · 2026 · Found in ORCID

Choose for “Domain-Specific Data Synthesis for LLMs through Minimal Sufficient Representation Learning”

Dialysis Risk Prediction and Treatment Effect Estimation for AKI patients using Longitudinal Electronic Health Records

ORCID match arXiv preprint arXiv:2604.24547 · 2026 · Found in ORCID

Choose for “Dialysis Risk Prediction and Treatment Effect Estimation for AKI patients using Longitudinal Electronic Health Records”

Designing and folding structural proteins from the primary amino acid sequence

ORCID match · 2026 · Found in ORCID

Choose for “Designing and folding structural proteins from the primary amino acid sequence”

CAAD: Causality-Aware Multivariate Time Series Anomaly Detection via Multi-Scale Alignment and Structural Causal Consistency

ORCID match Proceedings of the 32nd ACM SIGKDD Conference on Knowledge Discovery and Data Mining (KDD '26) · 2026 · Found in ORCID

Choose for “CAAD: Causality-Aware Multivariate Time Series Anomaly Detection via Multi-Scale Alignment and Structural Causal Consistency”

A problem-oriented perspective and anchor verification for code optimization

ORCID match ICLR 2026 · 2026 · Found in ORCID

Choose for “A problem-oriented perspective and anchor verification for code optimization”

A Novel Approach to Zero-Shot Drug-Drug Interaction Prediction Enabled by EHR-Augmented Knowledge Graphs.

ORCID match AMIA 2026 Amplify Informatics Conference · 2026 · Found in ORCID

Choose for “A Novel Approach to Zero-Shot Drug-Drug Interaction Prediction Enabled by EHR-Augmented Knowledge Graphs.”

SC-JEPA: Stabilizing Latent Predictive Learning for Time-Series Anomaly Prediction

ORCID match SIAM International Conference on Data Mining 2026 · 2026 · Found in ORCID

Choose for “ SC-JEPA: Stabilizing Latent Predictive Learning for Time-Series Anomaly Prediction”

When Structure Doesn’t Help: LLMs Do Not Read Text-Attributed Graphs as Effectively as We Expected

ORCID match The Fourth Learning on Graphs Conference · 2025 · Found in ORCID

Choose for “When Structure Doesn’t Help: LLMs Do Not Read Text-Attributed Graphs as Effectively as We Expected”

Wasserstein graph neural networks for graphs with missing attributes

ORCID match IEEE Transactions on Pattern Analysis and Machine Intelligence (TPAMI) · 2025 · Found in ORCID

Choose for “Wasserstein graph neural networks for graphs with missing attributes”

Wasserstein Graph Neural Networks for Graphs With Missing Attributes

Zhixian Chen, Tengfei Ma, Yangqiu Song, Yang Wang

ORCID match IEEE Transactions on Pattern Analysis and Machine Intelligence · 2025 · Found in OpenAlex

DOI: 10.1109/tpami.2025.3568480

Choose for “Wasserstein Graph Neural Networks for Graphs With Missing Attributes”

Understanding and Tackling Over-Dilution in Graph Neural Networks

ORCID match Proceedings of the 31st ACM SIGKDD Conference on Knowledge Discovery and Data Mining V. 2 · 2025 · Found in ORCID

Choose for “Understanding and Tackling Over-Dilution in Graph Neural Networks”

Uncovering llm-generated code: A zero-shot synthetic code detector via code rewriting

ORCID match Proceedings of the AAAI Conference on Artificial Intelligence · 2025 · Found in ORCID

Choose for “Uncovering llm-generated code: A zero-shot synthetic code detector via code rewriting”

The external thermal insulation composite system with foam ceramic insulation decoration integrated board: statics, mechanical properties, and artificial aging accelerated rate

Bin Sha, Gang Li, Tengfei Ma, Kelong Yuan, Shengyong Xia

ORCID match Journal of the Australian Ceramic Society · 2025 · Found in OpenAlex

DOI: 10.1007/s41779-025-01184-1

Choose for “The external thermal insulation composite system with foam ceramic insulation decoration integrated board: statics, mechanical properties, and artificial aging accelerated rate”

Shedding Light on Time Series Classification using Interpretability Gated Networks

ORCID match The Thirteenth International Conference on Learning Representations · 2025 · Found in ORCID

Choose for “Shedding Light on Time Series Classification using Interpretability Gated Networks”

Self-Supervised Learning on Molecular Graphs: A Systematic Investigation of Masking Design

ORCID match Transactions on Machine Learning Research (TMLR) · 2025 · Found in ORCID

Choose for “Self-Supervised Learning on Molecular Graphs: A Systematic Investigation of Masking Design”

Quantitative ultrasound augmented with machine learning to assess tissue microstructure during wound healing

ORCID match Biomedical Signal Processing and Control · 2025 · Found in ORCID

Choose for “Quantitative ultrasound augmented with machine learning to assess tissue microstructure during wound healing”

Obtaining a probability sample of a pregnancy cohort of births: a review of the problem and a practical solution

Michael R. Elliott, Jean M. Kerver, Alexa Drew, Kaitlyn Watson, Breanna Kornatowski, Gwendolyn Norman, Glenn Copeland, Eva Leissou, Terri Ridenour, Shonda R. Kruger‐ndiaye, Tengfei Ma, Douglas M. Ruden, Charles Barone, Daniel P. Keating, Robert J. Sokol, Christine Cole Johnson, Nigel Paneth

ORCID match American Journal of Epidemiology · 2025 · Found in OpenAlex

DOI: 10.1093/aje/kwaf110

Choose for “Obtaining a probability sample of a pregnancy cohort of births: a review of the problem and a practical solution”

NBDESCRIB: A Dataset for Text Description Generation from Tables and Code in Jupyter Notebooks with Guidelines

ORCID match Findings of the Association for Computational Linguistics: ACL 2025 · 2025 · Found in ORCID

Choose for “NBDESCRIB: A Dataset for Text Description Generation from Tables and Code in Jupyter Notebooks with Guidelines”

Multimodal collaborative framework for complex parking scenarios: multimodal perception fusion, curvature‑continuous trajectory planning and hierarchical robust tracking control

Dong Guo, Zhiqin Li, Bin Zhou, Tengfei Ma, Shuai Zhang, Chao Gao, Tongqing Zhang

ORCID match Expert Systems with Applications · 2025 · Found in OpenAlex

DOI: 10.1016/j.eswa.2025.129515

Choose for “Multimodal collaborative framework for complex parking scenarios: multimodal perception fusion, curvature‑continuous trajectory planning and hierarchical robust tracking control”

Llm4effi: Leveraging large language models to enhance code efficiency and correctness

ORCID match arXiv preprint arXiv:2502.18489 · 2025 · Found in ORCID

Choose for “Llm4effi: Leveraging large language models to enhance code efficiency and correctness”

Lattice-based group signature scheme and its application in IoMT

Ping Zhang, Qing Zhang, Tengfei Ma, Muhua Liu, Ji Zhang, Jiechang Wang

ORCID match Journal of Communications and Networks · 2025 · Found in OpenAlex

DOI: 10.23919/jcn.2025.000017

Choose for “Lattice-based group signature scheme and its application in IoMT”

Integrated machine learning analysis of proteomic and transcriptomic data identifies healing associated targets in diabetic wound repair

ORCID match Scientific reports · 2025 · Found in ORCID

Choose for “Integrated machine learning analysis of proteomic and transcriptomic data identifies healing associated targets in diabetic wound repair”

Hyperbolic Large Language Models

ORCID match SIAM Review · 2025 · Found in ORCID

Choose for “Hyperbolic Large Language Models”

HIBERT: A Hybrid Clustering BERT for Interpretable Opioid Overdose Risk Prediction

ORCID match AMIA Annual Symposium Proceedings · 2025 · Found in ORCID

Choose for “HIBERT: A Hybrid Clustering BERT for Interpretable Opioid Overdose Risk Prediction”

Enhancing Graph Representation Learning with Localized Topological Features

ORCID match Journal of Machine Learning Research · 2025 · Found in ORCID

Choose for “Enhancing Graph Representation Learning with Localized Topological Features”

Dual-Pathway Fusion of EHRs and Knowledge Graphs for Predicting Unseen Drug-Drug Interactions

ORCID match Machine Learning for Health 2025 · 2025 · Found in ORCID

Choose for “Dual-Pathway Fusion of EHRs and Knowledge Graphs for Predicting Unseen Drug-Drug Interactions”

Concept-Guided Backdoor Attack on Vision Language Models

ORCID match arXiv preprint arXiv:2512.00713 · 2025 · Found in ORCID

Choose for “Concept-Guided Backdoor Attack on Vision Language Models”

What Improves the Generalization of Graph Transformers? A Theoretical Dive into the Self-attention and Positional Encoding

ORCID match ICML 2024 · 2024 · Found in ORCID

Choose for “What Improves the Generalization of Graph Transformers? A Theoretical Dive into the Self-attention and Positional Encoding”

Trojvlm: Backdoor attack against vision language models

ORCID match The European Conference on Computer Vision (ECCV) · 2024 · Found in ORCID

Choose for “Trojvlm: Backdoor attack against vision language models”

Tram: A Token-level Retrieval-augmented Mechanism for Source Code Summarization

ORCID match NAACL 2024 Findings · 2024 · Found in ORCID

Choose for “Tram: A Token-level Retrieval-augmented Mechanism for Source Code Summarization”

TO-UGDA: target-oriented unsupervised graph domain adaptation

Zhuo Zeng, Jianyu Xie, Zhijie Yang, Tengfei Ma, Duanbing Chen

ORCID match Scientific Reports · 2024 · Found in OpenAlex

DOI: 10.1038/s41598-024-59890-y

Choose for “TO-UGDA: target-oriented unsupervised graph domain adaptation”

Masking in Molecular Graphs Leveraging Reaction Context

ORCID match ICML 2024 AI for Science Workshop · 2024 · Found in ORCID

Choose for “Masking in Molecular Graphs Leveraging Reaction Context”

FAC $^ 2$ E: Better Understanding Large Language Model Capabilities by Dissociating Language and Cognition

ORCID match EMNLP · 2024 · Found in ORCID

Choose for “FAC $^ 2$ E: Better Understanding Large Language Model Capabilities by Dissociating Language and Cognition”

Enhancing Clinical Predictive Modeling through Model Complexity-Driven Class Proportion Tuning for Class Imbalanced Data: An Empirical Study on Opioid Overdose Prediction.

Yinan Liu, Xinyu Dong, Weimin Lyu, Richard N. Rosenthal, Rachel Wong, Tengfei Ma, Fusheng Wang

ORCID match AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science · 2024 · Found in OpenAlex

DOI: 10.48550/arxiv.2305.05722

Choose for “Enhancing Clinical Predictive Modeling through Model Complexity-Driven Class Proportion Tuning for Class Imbalanced Data: An Empirical Study on Opioid Overdose Prediction.”

Enhancing Clinical Predictive Modeling through Model Complexity-Driven Class Proportion Tuning for Class Imbalanced Data: An Empirical Study on Opioid Overdose Prediction

ORCID match AMIA Summits on Translational Science Proceedings · 2024 · Found in ORCID

Choose for “Enhancing Clinical Predictive Modeling through Model Complexity-Driven Class Proportion Tuning for Class Imbalanced Data: An Empirical Study on Opioid Overdose Prediction”

AdaCCD: Adaptive Semantic Contrasts Discovery based Cross Lingual Adaptation for Code Clone Detection

ORCID match AAAI · 2024 · Found in ORCID

Choose for “AdaCCD: Adaptive Semantic Contrasts Discovery based Cross Lingual Adaptation for Code Clone Detection”

Abstracted Shapes as Tokens--A Generalizable and Interpretable Model for Time-series Classification

ORCID match The Thirty-Eighth Annual Conference on Neural Information Processing Systems (NeurIPS) · 2024 · Found in ORCID

Choose for “Abstracted Shapes as Tokens--A Generalizable and Interpretable Model for Time-series Classification”

Weighted Clock Logic Point Process

ORCID match International Conference on Learning Representations · 2023 · Found in ORCID

Choose for “Weighted Clock Logic Point Process”

SyncTREE: Fast Timing Analysis for Integrated Circuit Design through a Physics-informed Tree-based Graph Neural Network

ORCID match Advances in Neural Information Processing Systems · 2023 · Found in ORCID

Choose for “SyncTREE: Fast Timing Analysis for Integrated Circuit Design through a Physics-informed Tree-based Graph Neural Network”

Slide4N: Creating Presentation Slides from Computational Notebooks with Human-AI Collaboration

ORCID match Proceedings of the 2023 CHI Conference on Human Factors in Computing Systems · 2023 · Found in ORCID

Choose for “Slide4N: Creating Presentation Slides from Computational Notebooks with Human-AI Collaboration”

Protein structure prediction using machine learning

ORCID match · 2023 · Found in ORCID

Choose for “Protein structure prediction using machine learning”

Neural flow attestation

ORCID match · 2023 · Found in ORCID

Choose for “Neural flow attestation”

Layered stochastic anonymization of data

ORCID match · 2023 · Found in ORCID

Choose for “Layered stochastic anonymization of data”

Knowledge Graph Compression Enhances Diverse Commonsense Generation

ORCID match Proceedings of the 2023 Conference on Empirical Methods in Natural Language Processing · 2023 · Found in ORCID

Choose for “Knowledge Graph Compression Enhances Diverse Commonsense Generation”

IGB: Addressing The Gaps In Labeling, Features, Heterogeneity, and Size of Public Graph Datasets for Deep Learning Research

ORCID match Proceedings of the 29th ACM SIGKDD Conference on Knowledge Discovery and Data Mining · 2023 · Found in ORCID

Choose for “IGB: Addressing The Gaps In Labeling, Features, Heterogeneity, and Size of Public Graph Datasets for Deep Learning Research”

Federated Learning of Models Pre-Trained on Different Features with Consensus Graphs

ORCID match UAI 2023 · 2023 · Found in ORCID

Choose for “Federated Learning of Models Pre-Trained on Different Features with Consensus Graphs”

Cycle Invariant Positional Encoding for Graph Representation Learning

ORCID match Learning on Graphs Conference, 2023 · 2023 · Found in ORCID

Choose for “Cycle Invariant Positional Encoding for Graph Representation Learning”

Construction Risk Monitoring Method of Subway Foundation Pit Engineering Based on Simulated Annealing Neural Network

Tengfei Ma, Mingxian Zhang, Zhuoli Ji, Shuibing Zhang, Yi Zhang

ORCID match Lecture notes of the Institute for Computer Sciences, Social Informatics and Telecommunications Engineering · 2023 · Found in OpenAlex

DOI: 10.1007/978-3-031-28867-8_42

Choose for “Construction Risk Monitoring Method of Subway Foundation Pit Engineering Based on Simulated Annealing Neural Network”

CP-BCS: Binary Code Summarization Guided by Control Flow Graph and Pseudo Code

ORCID match Conference on Empirical Methods in Natural Language Processing · 2023 · Found in ORCID

Choose for “CP-BCS: Binary Code Summarization Guided by Control Flow Graph and Pseudo Code”

Artificial intelligence method to design and fold alpha-helical structural proteins from the primary amino acid sequence

Zhao Qin, Wuyuan Lu, Hui Sun, Shuanghong Huo, Tengfei Ma, Emilia L. Lim, Po‐Yu Chen, Benedetto Marelli, Markus J. Buehler

ORCID match Zenodo (CERN European Organization for Nuclear Research) · 2023 · Found in OpenAlex

DOI: 10.5281/zenodo.7885535

Choose for “Artificial intelligence method to design and fold alpha-helical structural proteins from the primary amino acid sequence”

Artificial intelligence method to design and fold alpha-helical structural proteins from the primary amino acid sequence

Zhao Qin, Wuyuan Lu, Hui Sun, Shuanghong Huo, Tengfei Ma, Emilia L. Lim, Po‐Yu Chen, Benedetto Marelli, Markus J. Buehler

ORCID match Zenodo (CERN European Organization for Nuclear Research) · 2023 · Found in OpenAlex

DOI: 10.5281/zenodo.7885534

Choose for “Artificial intelligence method to design and fold alpha-helical structural proteins from the primary amino acid sequence”

A Miniaturized, Battery-free, Wireless Wound Monitor that Predicts Wound Closure Rate Early

ORCID match Advanced Healthcare Materials · 2023 · Found in ORCID

Choose for “A Miniaturized, Battery-free, Wireless Wound Monitor that Predicts Wound Closure Rate Early”

Worenine Prevents Solar Ultraviolet–Induced Sunburn by Inhibiting JNK2

Juanjuan Xiao, Hui Lü, Tengfei Ma, Xiaofang Ni, Teding Chang, Man Liu, Nijie Li, Peijiang Lu, Changshu Ke, Tian Qin, Ling Zou, Fei Wang, Wei Wang, Lu Zhang, Ping Yuan, Lin Liu, Jianmin Zhang, Fei Shi, Qiuhong Duan, Feng Zhu

ORCID match Frontiers in Pharmacology · 2022 · Found in OpenAlex

DOI: 10.3389/fphar.2022.881042

Choose for “Worenine Prevents Solar Ultraviolet–Induced Sunburn by Inhibiting JNK2”

When Does A Spectral Graph Neural Network Fail in Node Classification?

ORCID match arXiv preprint arXiv:2202.07902 · 2022 · Found in ORCID

Choose for “When Does A Spectral Graph Neural Network Fail in Node Classification?”

The Role of Disease Severity and Demographics in the Clinical Course of COVID-19 Patients Treated With Convalescent Plasma

Tengfei Ma, Chad C. Wiggins, Breanna Kornatowski, Raed Hailat, Andrew J. Clayburn, Winston Guo, Patrick W. Johnson, Jonathon W. Senefeld, Stephen A. Klassen, Sarah E. Baker, Katelyn A. Bruno, DeLisa Fairweather, R. Scott Wright, Rickey E. Carter, Chenxi Li, Michael J. Joyner, Nigel Paneth

ORCID match Frontiers in Medicine · 2022 · Found in OpenAlex

DOI: 10.3389/fmed.2021.707895

Choose for “The Role of Disease Severity and Demographics in the Clinical Course of COVID-19 Patients Treated With Convalescent Plasma”

Retrosynthesis prediction revisited

ORCID match NeurIPS 2022 AI for Science: Progress and Promises · 2022 · Found in ORCID

Choose for “Retrosynthesis prediction revisited”

Neuro-symbolic Models for Interpretable Time Series Classification using Temporal Logic Description

ORCID match ICDM 2022 · 2022 · Found in ORCID

Choose for “Neuro-symbolic Models for Interpretable Time Series Classification using Temporal Logic Description”

Neural approximation of graph topological features

ORCID match Advances in Neural Information Processing Systems · 2022 · Found in ORCID

Choose for “Neural approximation of graph topological features”

Neural Approximation of Graph Topological Features

Zuoyu Yan, Tengfei Ma, Liangcai Gao, Zhi Tang, Yusu Wang, Chao Chen

ORCID match arXiv (Cornell University) · 2022 · Found in OpenAlex

DOI: 10.48550/arxiv.2201.12032

Choose for “Neural Approximation of Graph Topological Features”

MalGraph: Hierarchical Graph Neural Networks for Robust Windows Malware Detection

Xiang Ling, Lingfei Wu, Wei Deng, Zhenqing Qu, Jiangyu Zhang, Sheng Zhang, Tengfei Ma, Bin Wang, Chunming Wu, Shouling Ji

ORCID match Proceedings - IEEE INFOCOM · 2022 · Found in ORCID, OpenAlex

DOI: 10.1109/infocom48880.2022.9796786

Choose for “MalGraph: Hierarchical Graph Neural Networks for Robust Windows Malware Detection”

Gnnlens: A visual analytics approach for prediction error diagnosis of graph neural networks

ORCID match IEEE Transactions on Visualization and Computer Graphics · 2022 · Found in ORCID

Choose for “Gnnlens: A visual analytics approach for prediction error diagnosis of graph neural networks”

Fault prediction of combine harvesters based on stacked denoising autoencoders

Zhaomei Qiu, Gaoxiang Shi, Bo Zhao, Xin Jin, Liming Zhou, Tengfei Ma

ORCID match International journal of agricultural and biological engineering · 2022 · Found in OpenAlex

DOI: 10.25165/j.ijabe.20221502.6963

Choose for “Fault prediction of combine harvesters based on stacked denoising autoencoders”

FI_WD20K & SI_WD20K: Datasets For Hyper-Relational Inductive Link Prediction

Mehdi Ali, Max Berrendorf, Mikhail Galkin, Veronika Thost, Tengfei Ma, Volker Tresp, Jens Lehmann

ORCID match Zenodo (CERN European Organization for Nuclear Research) · 2022 · Found in OpenAlex

DOI: 10.5281/zenodo.6581273

Choose for “FI_WD20K & SI_WD20K: Datasets For Hyper-Relational Inductive Link Prediction”

FI_WD20K & SI_WD20K: Datasets For Hyper-Relational Inductive Link Prediction

Mehdi Ali, Max Berrendorf, Mikhail Galkin, Veronika Thost, Tengfei Ma, Volker Tresp, Jens Lehmann

ORCID match Zenodo (CERN European Organization for Nuclear Research) · 2022 · Found in OpenAlex

DOI: 10.5281/zenodo.6581274

Choose for “FI_WD20K & SI_WD20K: Datasets For Hyper-Relational Inductive Link Prediction”

Cycle Representation Learning for Inductive Relation Prediction

ORCID match ICML 2022 · 2022 · Found in ORCID

Choose for “Cycle Representation Learning for Inductive Relation Prediction”

Combinatorial Scientific Discovery: Finding New Concept Combinations Beyond Link Prediction

ORCID match ICLR 2022 Workshop on Deep Learning on Graphs for Natural Language Processing · 2022 · Found in ORCID

Choose for “Combinatorial Scientific Discovery: Finding New Concept Combinations Beyond Link Prediction”

CHEER: Rich Model Helps Poor Model via Knowledge Infusion

Cao Xiao, Trong Nghia Hoang, Shenda Hong, Tengfei Ma, Jimeng Sun

ORCID match IEEE Transactions on Knowledge and Data Engineering · 2022 · Found in ORCID, OpenAlex

DOI: 10.1109/tkde.2020.2989405

Choose for “CHEER: Rich Model Helps Poor Model via Knowledge Infusion”

BiGCN: A bi-directional low-pass filtering graph neural network

ORCID match Analysis and Applications · 2022 · Found in ORCID

Choose for “BiGCN: A bi-directional low-pass filtering graph neural network”

Attention Hijacking in Trojan Transformers

Weimin Lyu, Songzhu Zheng, Tengfei Ma, Haibin Ling, Chao Chen

ORCID match arXiv (Cornell University) · 2022 · Found in OpenAlex

DOI: 10.48550/arxiv.2208.04946

Choose for “Attention Hijacking in Trojan Transformers”

An Analysis of Virtual Nodes in Graph Neural Networks for Link Prediction

ORCID match Learning on Graphs Conference · 2022 · Found in ORCID

Choose for “An Analysis of Virtual Nodes in Graph Neural Networks for Link Prediction”

A Study of the Attention Abnormality in Trojaned BERTs

Weimin Lyu, Songzhu Zheng, Tengfei Ma, Chao Chen

ORCID match arXiv · 2022 · Found in ORCID, OpenAlex

DOI: 10.48550/arxiv.2205.08305

Choose for “A Study of the Attention Abnormality in Trojaned BERTs”

A Study of the Attention Abnormality in Trojaned BERTs

ORCID match NAACL 2022 · 2022 · Found in ORCID

Choose for “A Study of the Attention Abnormality in Trojaned BERTs”

A Study of the Attention Abnormality in Trojaned BERTs

Weimin Lyu, Songzhu Zheng, Tengfei Ma, Chao Chen

ORCID match Proceedings of the 2022 Conference of the North American Chapter of the Association for Computational Linguistics: Human Language Technologies · 2022 · Found in OpenAlex

DOI: 10.18653/v1/2022.naacl-main.348

Choose for “A Study of the Attention Abnormality in Trojaned BERTs”

Timeline summarization based on event graph compression via time-aware optimal transport

ORCID match Proceedings of the 2021 Conference on Empirical Methods in Natural Language Processing · 2021 · Found in ORCID

Choose for “Timeline summarization based on event graph compression via time-aware optimal transport”

Timeline Summarization based on Event Graph Compression via Time-Aware Optimal Transport

Manling Li, Tengfei Ma, Mo Yu, Lingfei Wu, Tian Gao, Heng Ji, Kathleen McKeown

ORCID match Proceedings of the 2021 Conference on Empirical Methods in Natural Language Processing · 2021 · Found in OpenAlex

DOI: 10.18653/v1/2021.emnlp-main.519

Choose for “Timeline Summarization based on Event Graph Compression via Time-Aware Optimal Transport”

The Role of Disease Severity and Demographics in the Clinical Course of COVID-19 Patients Treated with Convalescent Plasma

Tengfei Ma, Chad C. Wiggins, Breanna Kornatowski, Raed Hailat, Andrew C. Clayburn, Winston Guo, Patrick W. Johnson, Jonathon W. Senefeld, Stephen A. Klassen, Sarah E. Baker, Katelyn A. Bruno, DeLisa Fairweather, R. Scott Wright, Rickey E. Carter, Chenxi Li, Michael J. Joyner, Nigel Paneth

ORCID match medRxiv · 2021 · Found in OpenAlex

DOI: 10.1101/2021.01.19.21249678

Choose for “The Role of Disease Severity and Demographics in the Clinical Course of COVID-19 Patients Treated with Convalescent Plasma”

The Cumulative Rate of SARS-CoV-2 Infection in Chinese Hemodialysis Patients (vol 5, 1416, 2020)

Xiaoyun Xu, Shuke Nie, Jiangtao Sun, Yansi Kong, Mingkai Liang, Deng-Shuai Li, Tengfei Ma, Jianlong Peng, Sujuan Gao, Yuchan Shao, Yuguo Zha, Gangyi Peng, Cuirong Ren, A. L. Huang, Fan Fan Hou

ORCID match Kidney International Reports · 2021 · Found in OpenAlex

Choose for “The Cumulative Rate of SARS-CoV-2 Infection in Chinese Hemodialysis Patients (vol 5, 1416, 2020)”

STONE: Signal Temporal Logic Neural Network for Time Series Classification

Ruixuan Yan, A. Agung Julius, Maria Chang, Achille Fokoue, Tengfei Ma, Rosario Uceda‐Sosa

ORCID match IEEE International Conference on Data Mining Workshops, ICDMW · 2021 · Found in ORCID, OpenAlex

DOI: 10.1109/icdmw53433.2021.00101

Choose for “STONE: Signal Temporal Logic Neural Network for Time Series Classification”

Relation matters in sampling: a scalable multi-relational graph neural network for drug-drug interaction prediction

ORCID match arXiv preprint arXiv:2105.13975 · 2021 · Found in ORCID

Choose for “Relation matters in sampling: a scalable multi-relational graph neural network for drug-drug interaction prediction”

Multilevel graph matching networks for deep graph similarity learning

Xiang Ling, Lingfei Wu, Saizhuo Wang, Tengfei Ma, Fangli Xu, Alex X. Liu, Chunming Wu, Shouling Ji

ORCID match IEEE Transactions on Neural Networks and Learning Systems · 2021 · Found in ORCID, OpenAlex

DOI: 10.1109/tnnls.2021.3102234

Choose for “Multilevel graph matching networks for deep graph similarity learning”

Link prediction with persistent homology: An interactive view

ORCID match International conference on machine learning · 2021 · Found in ORCID

Choose for “Link prediction with persistent homology: An interactive view”

Link Prediction with Persistent Homology: An Interactive View

Zuoyu Yan, Tengfei Ma, Liangcai Gao, Zhi Tang, Chao Chen

ORCID match arXiv (Cornell University) · 2021 · Found in OpenAlex

DOI: 10.48550/arxiv.2102.10255

Choose for “Link Prediction with Persistent Homology: An Interactive View”

Improving Inductive Link Prediction Using Hyper-relational Facts

Mehdi Ali, Max Berrendorf, Mikhail Galkin, Veronika Thost, Tengfei Ma, Volker Tresp, Jens Lehmann

ORCID match Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) · 2021 · Found in ORCID, OpenAlex

DOI: 10.1007/978-3-030-88361-4_5

Choose for “Improving Inductive Link Prediction Using Hyper-relational Facts”

Deep Graph Matching and Searching for Semantic Code Retrieval

Xiang Ling, Lingfei Wu, Saizhuo Wang, Gaoning Pan, Tengfei Ma, Fangli Xu, Alex X. Liu, Chunming Wu, Shouling Ji

ORCID match ACM Transactions on Knowledge Discovery from Data · 2021 · Found in ORCID, OpenAlex

DOI: 10.1145/3447571

Choose for “Deep Graph Matching and Searching for Semantic Code Retrieval”

BiGCN: A Bi-directional Low-Pass Filtering Graph Neural Network

Zhixian Chen, Tengfei Ma, Zhihua Jin, Yangqiu Song, Yang Wang

ORCID match arXiv (Cornell University) · 2021 · Found in OpenAlex

DOI: 10.48550/arxiv.2101.05519

Choose for “BiGCN: A Bi-directional Low-Pass Filtering Graph Neural Network”

Supervised Topic Compositional Neural Language Model for Clinical Narrative Understanding

Xiao Qin, Cao Xiao, Tengfei Ma, Tabassum Kakar, Susmitha Wunnava, Xiangnan Kong, Elke A. Rundensteiner, Fei Wang

ORCID match Proceedings - 2020 IEEE International Conference on Big Data, Big Data 2020 · 2020 · Found in ORCID, OpenAlex

DOI: 10.1109/bigdata50022.2020.9378347

Choose for “Supervised Topic Compositional Neural Language Model for Clinical Narrative Understanding”

Repurpose Open Data to Discover Therapeutics for COVID-19 using Deep Learning

Xiangxiang Zeng, Xiang Song, Tengfei Ma, Xiaoqin Pan, Yadi Zhou, Yuan Hou, Zheng Zhang, George Karypis, Feixiong Cheng

ORCID match arXiv (Cornell University) · 2020 · Found in OpenAlex

DOI: 10.48550/arxiv.2005.10831

Choose for “Repurpose Open Data to Discover Therapeutics for COVID-19 using Deep Learning”

Repurpose Open Data to Discover Therapeutics for COVID-19 Using Deep Learning

Xiangxiang Zeng, Xiang Song, Tengfei Ma, Xiaoqin Pan, Yadi Zhou, Yuan Hou, Zheng Zhang, Kenli Li, George Karypis, Feixiong Cheng

ORCID match Journal of Proteome Research · 2020 · Found in OpenAlex

DOI: 10.1021/acs.jproteome.0c00316

Choose for “Repurpose Open Data to Discover Therapeutics for COVID-19 Using Deep Learning”

Proteomics provides insights into the inhibition of Chinese hamster V79 cell proliferation in the deep underground environment

Shixi Liu, Jifeng Liu, Tengfei Ma, Mingzhong Gao, Yilin Liu, Jun Liu, Shichao Wang, Yike Xie, Ling Wang, Juan Cheng, Jian Zou, Jiang Wu, Weimin Li, Heping Xie

ORCID match Research Square · 2020 · Found in OpenAlex

DOI: 10.21203/rs.2.22916/v1

Choose for “Proteomics provides insights into the inhibition of Chinese hamster V79 cell proliferation in the deep underground environment”

Prevalence of inadequate and excessive iodine intake in a US pregnancy cohort

Jean M. Kerver, Elizabeth N. Pearce, Tengfei Ma, Monica Gentchev, Michael R. Elliott, Nigel Paneth

ORCID match American Journal of Obstetrics and Gynecology · 2020 · Found in OpenAlex

DOI: 10.1016/j.ajog.2020.06.052

Choose for “Prevalence of inadequate and excessive iodine intake in a US pregnancy cohort”

EvolveGCN: Evolving Graph Convolutional Networks for Dynamic Graphs

Aldo Pareja, Giacomo Domeniconi, Jie Chen, Tengfei Ma, Toyotaro Suzumura, Hiroki Kanezashi, Tim Kaler, Tao B. Schardl, Charles E. Leiserson

ORCID match AAAI Publications (The Association for the Advancement of Artificial Intelligence (AAAI)) · 2020 · Found in OpenAlex

DOI: 10.1609/aaai.v34i04.5984

Choose for “EvolveGCN: Evolving Graph Convolutional Networks for Dynamic Graphs”

DeepDrawing: A Deep Learning Approach to Graph Drawing

Yong Wang, Zhihua Jin, Qianwen Wang, Weiwei Cui, Tengfei Ma, Huamin Qu

ORCID match IEEE Transactions on Visualization and Computer Graphics · 2020 · Found in ORCID, OpenAlex

DOI: 10.1109/tvcg.2019.2934798

Choose for “DeepDrawing: A Deep Learning Approach to Graph Drawing”

Deep Graph Learning: Foundations, Advances and Applications

ORCID match Proceedings of the ACM SIGKDD International Conference on Knowledge Discovery and Data Mining · 2020 · Found in ORCID

DOI: 10.1145/3394486.3406474

Choose for “Deep Graph Learning: Foundations, Advances and Applications”

Deep Graph Learning

Yu Rong, Tingyang Xu, Junzhou Huang, Wenbing Huang, Hong Cheng, Yao Ma, Yiqi Wang, Tyler Derr, Lingfei Wu, Tengfei Ma

ORCID match · 2020 · Found in OpenAlex

DOI: 10.1145/3394486.3406474

Choose for “Deep Graph Learning”

Curvature Graph Network

Ze Ye, Kin Sum Liu, Tengfei Ma, Jie Gao, Chao Chen

ORCID match International Conference on Learning Representations · 2020 · Found in OpenAlex

Choose for “Curvature Graph Network”

CHEER: Rich Model Helps Poor Model via Knowledge Infusion

Cao Xiao, Trong Nghia Hoang, Shenda Hong, Tengfei Ma, Jimeng Sun

ORCID match arXiv (Cornell University) · 2020 · Found in OpenAlex

DOI: 10.48550/arxiv.2005.10918

Choose for “CHEER: Rich Model Helps Poor Model via Knowledge Infusion”

Reaching Data Confidentiality and Model Accountability on the CalTrain

Zhongshu Gu, Hani Jamjoom, Dong Su, Heqing Huang, Jialong Zhang, Tengfei Ma, Dimitrios Pendarakis, Ian Molloy

ORCID match Proceedings - 49th Annual IEEE/IFIP International Conference on Dependable Systems and Networks, DSN 2019 · 2019 · Found in ORCID, OpenAlex

DOI: 10.1109/dsn.2019.00044

Choose for “Reaching Data Confidentiality and Model Accountability on the CalTrain”

RDPD: Rich data helps poor data via imitation

Shenda Hong, Cao Xiao, Trong Nghia Hoang, Tengfei Ma, Hongyan Li, Jimeng Sun

ORCID match IJCAI International Joint Conference on Artificial Intelligence · 2019 · Found in ORCID, OpenAlex

DOI: 10.24963/ijcai.2019/817

Choose for “RDPD: Rich data helps poor data via imitation”

Pre-training BERT on domain resources for short answer grading

ORCID match EMNLP-IJCNLP 2019 - 2019 Conference on Empirical Methods in Natural Language Processing and 9th International Joint Conference on Natural Language Processing, Proceedings of the Conference · 2019 · Found in ORCID

Choose for “Pre-training BERT on domain resources for short answer grading”

PearL: Prototype learning via rule learning

ORCID match ACM-BCB 2019 - Proceedings of the 10th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics · 2019 · Found in ORCID

Choose for “PearL: Prototype learning via rule learning”

PearL: Prototype learning via rule learning

ORCID match ACM-BCB 2019 - Proceedings of the 10th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics · 2019 · Found in ORCID

DOI: 10.1145/3307339.3343250

Choose for “PearL: Prototype learning via rule learning”

PEARL

Tianfan Fu, Tian Gao, Cao Xiao, Tengfei Ma, Jimeng Sun

ORCID match · 2019 · Found in OpenAlex

DOI: 10.1145/3307339.3342159

Choose for “PEARL”

PEARL

Tianfan Fu, Tian Gao, Cao Xiao, Tengfei Ma, Jimeng Sun

ORCID match · 2019 · Found in OpenAlex

DOI: 10.1145/3307339.3343250

Choose for “PEARL”

Innovative Mini-DST and Production Evaluation Approach at Challenging HPHT Condition for KeShen Tight Gas Reservoir, a Case Study at Tarim Basin

Shichen Shuai, Xinlei Zhang, Tengfei Ma, Yuanliang Zhao, Qingbin Guo, Jichao Chen, Zhaoya Fan, Bo Bi, Lei Yang

ORCID match International Petroleum Technology Conference · 2019 · Found in OpenAlex

DOI: 10.2523/iptc-19369-ms

Choose for “Innovative Mini-DST and Production Evaluation Approach at Challenging HPHT Condition for KeShen Tight Gas Reservoir, a Case Study at Tarim Basin”

Innovative Mini-DST and Production Evaluation Approach at Challenging HPHT Condition for KeShen Tight Gas Reservoir, a Case Study at Tarim Basin

Shichen Shuai, Xinlei Zhang, Tengfei Ma, Yuanliang Zhao, Qingbin Guo, Jichao Chen, Zhaoya Fan, Bo Bi, Lei Yang

ORCID match International Petroleum Technology Conference · 2019 · Found in OpenAlex

DOI: 10.2523/19369-ms

Choose for “Innovative Mini-DST and Production Evaluation Approach at Challenging HPHT Condition for KeShen Tight Gas Reservoir, a Case Study at Tarim Basin”

Graph enhanced cross-domain text-to-SQL generation

ORCID match EMNLP-IJCNLP 2019 - Graph-Based Methods for Natural Language Processing - Proceedings of the 13th Workshop · 2019 · Found in ORCID

Choose for “Graph enhanced cross-domain text-to-SQL generation”

Graph Enhanced Cross-Domain Text-to-SQL Generation

Siyu Huo, Tengfei Ma, Jie Chen, Maria Chang, Lingfei Wu, Michael Witbrock

ORCID match · 2019 · Found in OpenAlex

DOI: 10.18653/v1/d19-5319

Choose for “Graph Enhanced Cross-Domain Text-to-SQL Generation”

GAMENet: Graph augmented memory networks for recommending medication combination

ORCID match 33rd AAAI Conference on Artificial Intelligence, AAAI 2019, 31st Innovative Applications of Artificial Intelligence Conference, IAAI 2019 and the 9th AAAI Symposium on Educational Advances in Artificial Intelligence, EAAI 2019 · 2019 · Found in ORCID

Choose for “GAMENet: Graph augmented memory networks for recommending medication combination”

Development Platform of Water System Operation: An Introduction

Wang Chao, Yunzhong Jiang, Xiaohui Lei, Zhiguo Gan, Yong Peng, Tengfei Ma

ORCID match Proceedings of the IAHR World Congress · 2019 · Found in OpenAlex

DOI: 10.3850/38wc092019-1673

Choose for “Development Platform of Water System Operation: An Introduction”

DeepDrawing: A Deep Learning Approach to Graph Drawing

Yong Wang, Zhihua Jin, Qianwen Wang, Weiwei Cui, Tengfei Ma, Huamin Qu

ORCID match arXiv (Cornell University) · 2019 · Found in OpenAlex

DOI: 10.48550/arxiv.1907.11040

Choose for “DeepDrawing: A Deep Learning Approach to Graph Drawing”

Scalable Graph Learning for Anti-Money Laundering: A First Look

Mark Weber, Jie Chen, Toyotaro Suzumura, Aldo Pareja, Tengfei Ma, Hiroki Kanezashi, Tim Kaler, Charles E. Leiserson, Tao B. Schardl

ORCID match arXiv (Cornell University) · 2018 · Found in OpenAlex

DOI: 10.48550/arxiv.1812.00076

Choose for “Scalable Graph Learning for Anti-Money Laundering: A First Look”

Reaching Data Confidentiality and Model Accountability on the CalTrain

Zhongshu Gu, Hani Jamjoom, Dong Su, Heqing Huang, Jialong Zhang, Tengfei Ma, Dimitrios Pendarakis, Ian Molloy

ORCID match arXiv (Cornell University) · 2018 · Found in OpenAlex

DOI: 10.48550/arxiv.1812.03230

Choose for “Reaching Data Confidentiality and Model Accountability on the CalTrain”

RDPD: Rich Data Helps Poor Data via Imitation

Shenda Hong, Cao Xiao, Trong Nghia Hoang, Tengfei Ma, Hongyan Li, Jimeng Sun

ORCID match arXiv (Cornell University) · 2018 · Found in OpenAlex

DOI: 10.48550/arxiv.1809.01921

Choose for “RDPD: Rich Data Helps Poor Data via Imitation”

Preliminary evaluations of a dialogue-based digital tutor

Matthew Ventura, Maria Chang, Peter W. Foltz, Nirmal Mukhi, Jessica Yarbro, Anne Pier Salverda, John T. Behrens, Jae‐wook Ahn, Tengfei Ma, Tejas I. Dhamecha, Smit Marvaniya, Patrick Watson, Cassius D'Helon, Ravi Tejwani, Shazia Afzal

ORCID match Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) · 2018 · Found in ORCID, OpenAlex

DOI: 10.1007/978-3-319-93846-2_90

Choose for “Preliminary evaluations of a dialogue-based digital tutor”

Pearl: Prototype lEArning via Rule Lists

Tianfan Fu, Tian Gao, Cao Xiao, Tengfei Ma, Jimeng Sun

ORCID match · 2018 · Found in OpenAlex

Choose for “Pearl: Prototype lEArning via Rule Lists”

CGNF: Conditional Graph Neural Fields

Tengfei Ma, Cao Xiao, Junyuan Shang, Jimeng Sun

ORCID match · 2018 · Found in OpenAlex

Choose for “CGNF: Conditional Graph Neural Fields”

AWE: Asymmetric Word Embedding for Textual Entailment

Tengfei Ma, Chia-Min Wu, Cao Xiao, Jimeng Sun

ORCID match arXiv (Cornell University) · 2018 · Found in OpenAlex

DOI: 10.48550/arxiv.1809.04047

Choose for “AWE: Asymmetric Word Embedding for Textual Entailment”

Wizard’s apprentice: cognitive suggestion support for Wizard-of-Oz question answering

Jae‐wook Ahn, Patrick Watson, Maria Chang, Sharad Sundararajan, Tengfei Ma, Nirmal Mukhi, Srijith Prabhu

ORCID match Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) · 2017 · Found in ORCID, OpenAlex

DOI: 10.1007/978-3-319-61425-0_79

Choose for “Wizard’s apprentice: cognitive suggestion support for Wizard-of-Oz question answering”

Multilingual training of crosslingual word embeddings

Long Duong, Hiroshi Kanayama, Tengfei Ma, Steven Bird, Trevor Cohn

ORCID match 15th Conference of the European Chapter of the Association for Computational Linguistics, EACL 2017 - Proceedings of Conference · 2017 · Found in ORCID, OpenAlex

DOI: 10.18653/v1/e17-1084

Choose for “Multilingual training of crosslingual word embeddings”

Learning crosslingual word embeddings without bilingual corpora

Long Duong, Hiroshi Kanayama, Tengfei Ma, Steven Bird, Trevor Cohn

ORCID match EMNLP 2016 - Conference on Empirical Methods in Natural Language Processing, Proceedings · 2016 · Found in ORCID, OpenAlex

DOI: 10.18653/v1/d16-1136

Choose for “Learning crosslingual word embeddings without bilingual corpora”

Learning Crosslingual Word Embeddings without Bilingual Corpora

Long Duong, Hiroshi Kanayama, Tengfei Ma, Steven Bird, Trevor Cohn

ORCID match arXiv (Cornell University) · 2016 · Found in OpenAlex

DOI: 10.48550/arxiv.1606.09403

Choose for “Learning Crosslingual Word Embeddings without Bilingual Corpora”

The hybrid nested/hierarchical dirichlet process and its application to topic modeling with word differentiation

ORCID match Proceedings of the AAAI Conference on Artificial Intelligence · 2015 · Found in ORCID

Choose for “The hybrid nested/hierarchical dirichlet process and its application to topic modeling with word differentiation”

Automatically determining a proper length for multi-document summarization: A bayesian nonparametric approach

ORCID match Proceedings of the 2013 conference on empirical methods in natural language processing · 2013 · Found in ORCID

Choose for “Automatically determining a proper length for multi-document summarization: A bayesian nonparametric approach”

Automated tracing of retinal blood vessels using graphical models

ORCID match Image Analysis: 18th Scandinavian Conference, SCIA 2013, Espoo, Finland, June 17-20, 2013. Proceedings 18 · 2013 · Found in ORCID

Choose for “Automated tracing of retinal blood vessels using graphical models”

Automated Tracing of Retinal Blood Vessels Using Graphical Models

Jaydeep De, Tengfei Ma, Huiqi Li, Manoranjan Dash, Cheng Li

ORCID match Lecture notes in computer science · 2013 · Found in OpenAlex

DOI: 10.1007/978-3-642-38886-6_27

Choose for “Automated Tracing of Retinal Blood Vessels Using Graphical Models”

Named entity recognition in Chinese news comments on the web

ORCID match Proceedings of 5th international joint conference on natural language processing · 2011 · Found in ORCID

Choose for “Named entity recognition in Chinese news comments on the web”

Named Entity Recognition in Chinese News Comments on the Web

Xiaojun Wan, Liang Zong, Xiaojiang Huang, Tengfei Ma, Houping Jia, Yuqian Wu, Jianguo Xiao

ORCID match International Joint Conference on Natural Language Processing · 2011 · Found in OpenAlex

Choose for “Named Entity Recognition in Chinese News Comments on the Web”

Opinion target extraction in Chinese news comments

ORCID match Coling 2010: Posters · 2010 · Found in ORCID

Choose for “Opinion target extraction in Chinese news comments”

Multi-document summarization using minimum distortion

ORCID match 2010 IEEE International Conference on Data Mining · 2010 · Found in ORCID

Choose for “Multi-document summarization using minimum distortion”
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