Fusheng Wang

Fusheng Wang headshot

Fusheng Wang

Professor
Department of Biomedical Informatics
Department of Computer Science

2313D Computer Science
Stony Brook University
Stony Brook, NY 11794-4400
Phone: (631) 632-2598
fusheng.wang@stonybrook.edu

Interests

Scalable Big Data Management, GIS, Medical Imaging Informatics, Population Health and Opioid Epidemic Research, AI in Healthcare, Assistive Technologies

Biography

Dr. Fusheng Wang received his Ph.D. in Computer Science from University of California, Los Angeles, and M.S. and B.S. in Engineering Physics from Tsinghua University, China. Prior to joining Stony Brook University, he was an assistant professor at Emory University. He was a research scientist at Siemens Corporate Research (Princeton, NJ) before joining Emory University.

Research

Dr. Wang's research covers data management and biomedical informatics, and in particular, the intersection of the two fields. His research goal on data management is to address the research challenges for delivering effective, scalable and expressive software systems for managing and querying complex data at multiple dimensions, including 2D and 3D spatial and imaging data, temporal data, spatial-temporal data, and sequencing data. The research goal on biomedical informatics is to develop novel methods and software systems to optimize the extraction, management, and mining of biomedical data with much improved efficiency, accuracy and interoperability to support biomedical research and the healthcare enterprise. His current projects include spatial big data systems, scalable data management for IoT, 3D digital pathology, imaging informatics, and public health such as data driven studies on opioid epidemic.

Awards

EDBT Test of Time (2016)

NSF CAREER (2014)

Publications

  1. Geng L, Yuan Z, Lee R, Wang F, Zhang X. X-HD: Fast Hausdorff Distance Computation with Ray Tracing. ACM International Conference on Supercomputing (ICS). 2026:945-959. doi:10.1145/3797905.3800509
  2. Han GYQ, Tai H, Wang F. Incremental Predictive Value and Representation of Transcriptomic Features for Immunotherapy Response in Advanced Urothelial Carcinoma. medRxiv. 2026. doi:10.64898/2026.09.14.26363060
  3. Ding Z, Han G, Ma T, Wang F, Hajagos J, Kurç T, et al. From National Data to Local Evaluation: Benchmarking Machine Learning Models for Perioperative Risk Prediction. medRxiv. 2026. doi:10.64898/2026.09.02.26361824
  4. Zhou C, He C, Lin J, He J, Dai P, Wang F. Early detection of heart failure using trend similarity metrics combined with hybrid deep learning based on real-world health monitoring data. Journal of The Royal Society Interface. 2026;23(237). doi:10.1098/rsif.2025.0997 PMID: 41980729
  5. Osborne T, Mahmud T, Zheng X, Jampala S, Abbasi S, Hong S, et al. Clinician-centered evaluation of large language model-generated discharge summaries for longer hospitalizations. npj Digital Medicine. 2026. doi:10.1038/s41746-026-03320-y
  6. Osborne T, Mahmud T, Zheng X, Jampala S, Abbasi S, Hong SE, et al. Clinician-Centered Evaluation of Large Language Model-Generated Discharge Summaries for Longer Hospitalizations: Insights from Hospitalists and Primary Care Physicians. medRxiv. 2026. doi:10.64898/2026.06.03.26354858
  7. Bueckle A, Herr BW, Chen L, Bolin D, Qaurooni D, Ginda M, et al. Cell Type Populations for 3D Anatomical Structures of the Human Reference Atlas. Scientific Data. 2026;13(1). doi:10.1038/s41597-026-06642-4 PMID: 40894635
  8. Han GYQ, Kalogeropoulos AP, Butzin-Dozier Z, Wong R, Wang F. Causal Machine Learning for Comparative Effectiveness of GLP-1 RA versus SGLT2i in Heart Failure Using Real-World EHR Data. medRxiv. 2026. doi:10.64898/2026.04.06.26350259
  9. Osborne T, Abbasi S, Hong SE, Sexton R, Ambut J, Patel NJ, et al. Towards Inpatient Discharge Summary Automation via Large Language Models: A Multidimensional Evaluation with a HIPAA-Compliant Instance of GPT-4o and Clinical Expert Assessment. medRxiv. 2025;2024:959-968. doi:10.1101/2025.04.03.25325204 PMID: 41726458
  10. Li Q, Wang F, Jiang Y, Kong J. Personalized Long-Term Survival Prediction Across Breast Cancer Molecular Subtypes via Multimodal Transformer Attention. SSRN Electronic Journal. 2025. doi:10.2139/ssrn.5586618
  11. Börner K, Blood PD, Silverstein JC, Ruffalo M, Satija R, Teichmann SA, et al. Human BioMolecular Atlas Program (HuBMAP): 3D Human Reference Atlas construction and usage. Nature Methods. 2025;22(4):845-860. doi:10.1038/s41592-024-02563-5 PMID: 38826261
  12. Teng D, Li Z, Peng Z, Ma S, Wang F. Efficient and Accurate Spatial Queries Using Lossy Compressed 3D Geometry Data. IEEE Transactions on Knowledge and Data Engineering. 2025;37(5):2472-2487. doi:10.1109/tkde.2025.3539729
  13. Ding Z, Deng J, Mermelstein L, Nemesure BB, Osborne T, Wang F. Demographic disparities, temporal trends, and geographic patterns of HPV vaccination on Long Island, New York: A comprehensive analysis of immunization registry data (2012-2023). Human Vaccines & Immunotherapeutics. 2025;21(1):2487383. doi:10.1080/21645515.2025.2487383 PMID: 40235165
  14. Bueckle A, Herr BW 2nd, Chen L, Bolin D, Qaurooni D, Ginda M, et al. Cell type populations for 3D anatomical structures of the Human Reference Atlas. bioRxiv : the preprint server for biology. 2025. doi:10.1101/2025.08.14.670406 PMID: 40894635
  15. Xu Z, Teng D, Peng Z, Wang F. Understanding the Intrinsic Characteristics of Spatial Partitioning in Distributed Spatial Join. 2024 IEEE International Conference on Big Data (BigData). 2024:403-412. doi:10.1109/bigdata62323.2024.10825846
  16. Qi Y, Wang F, Kong J, Cao JJ, Li YY. SwinUNet: a multiscale feature learning approach to cardiovascular magnetic resonance parametric mapping for myocardial tissue characterization. Physiological Measurement. 2024;45(3):035007. doi:10.1088/1361-6579/ad2c15 PMID: 38387052
  17. Zhou C, Dai P, Huang X, Wang F. Intelligent Route Planning Recommendation for Electric Bus Transport. International Journal of Intelligent Systems. 2024;2024(1). doi:10.1155/2024/5947433
  18. Shi Z, Zhang J, Kong J, Wang F. Integrative Graph-Transformer Framework for Histopathology Whole Slide Image Representation and Classification. Lecture Notes in Computer Science. 2024:341-350. doi:10.1007/978-3-031-72120-5_32
  19. Wang F, Lee R, Teng D, Zhang X, Saltz JH. High-Performance Spatial Data Analytics: Systematic R&D for Scale-Out and Scale-Up Solutions from the Past to Now. Proceedings of the VLDB Endowment. 2024;17(12):4507-4520. doi:10.14778/3685800.3685912
  20. Ding Z, Dong X, Liu Y, Ma T, Zhao X, Wong R, et al. HIBERT: A Hybrid Clustering BERT for Interpretable Opioid Overdose Risk Prediction. PubMed. 2024;2024:303-312. PMID: 41726407
  21. FRISTS: High-Performing Interpretable Medical Prediction. 2024 IEEE International Conference on Big Data (BigData). 2024. doi:10.1109/bigdata62323.2024.10826101
  22. Liu Y, Dong X, Lyu W, Rosenthal RN, Wong R, Ma T, et al. Enhancing Clinical Predictive Modeling through Model Complexity-Driven Class Proportion Tuning for Class Imbalanced Data: An Empirical Study on Opioid Overdose Prediction. AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science. 2024;2024:334-343. doi:10.48550/arxiv.2305.05722 PMID: 38827110
  23. Lyu W, Zexin B, Fusheng W, Chen C. BadCLM: Backdoor Attack in Clinical Language Models for Electronic Health Records. AMIA ... Annual Symposium proceedings. AMIA Symposium. 2024;2024:768-777. doi:10.48550/arxiv.2407.05213 PMID: 40417555
  24. Zhou C, Dai P, Hou A, Zhang Z, Liu L, Li A, et al. A comprehensive review of deep learning-based models for heart disease prediction. Artificial Intelligence Review. 2024;57(10). doi:10.1007/s10462-024-10899-9
  25. Deng J, Yang Z, Wang H, Ojima I, Samaras D, Wang F. Unraveling Key Elements Underlying Molecular Property Prediction: A Systematic Study. ArXiv. 2023. doi:10.48550/arxiv.2209.13492
  26. Herr BW, Hardi J, Quardokus EM, Bueckle A, Chen L, Wang F, et al. Specimen, biological structure, and spatial ontologies in support of a Human Reference Atlas. Scientific Data. 2023;10(1):171. doi:10.1038/s41597-023-01993-8 PMID: 36973309
  27. Du S, Yao J, Shen GC, Lin B, Udo T, Hastings JF, et al. Social Drivers of Mental Health: A U.S. Study Using Machine Learning. American Journal of Preventive Medicine. 2023;65(5):827-834. doi:10.1016/j.amepre.2023.05.022 PMID: 37286016
  28. Yu H, Wang F, Teodoro G, Chen F, Guo X, Nickerson JM, et al. Self-supervised semantic segmentation of retinal pigment epithelium cells in flatmount fluorescent microscopy images. Bioinformatics. 2023;39(4). doi:10.1093/bioinformatics/btad191 PMID: 37067486
  29. Cui W, Liu R, Li Z, Wang Y, Wang A, Zhao X, et al. GlanceWriter: Writing Text by Glancing Over Letters with Gaze. Proceedings of the 2023 CHI Conference on Human Factors in Computing Systems. 2023:1-13. doi:10.1145/3544548.3581269
  30. Lin S, Dong X, Wang F. FRISTS: Interpretable Time Series-Based Heart Failure Risk Prediction. medRxiv. 2023. doi:10.1101/2023.12.20.23299867
  31. Achonu JU, Oh K, Shaw J, Rashidian S, Wang F, Komatsu DE, et al. Epidemiologic patterns of adolescent idiopathic scoliosis detection and treatment in new york state. Journal of Pediatric Orthopaedics B. 2023;32(6):507-516. doi:10.1097/bpb.0000000000001066 PMID: 36847202
  32. Teng D, Baig F, Peng Z, Kong J, Wang F. Efficient spatial queries over complex polygons with hybrid representations. GeoInformatica. 2023;28(3):459-497. doi:10.1007/s10707-023-00508-2
  33. Roy M, Wang F, Teodoro G, Bhattarai S, Bhargava M, Rekha TS, et al. Deep learning based registration of serial whole-slide histopathology images in different stains. Journal of Pathology Informatics. 2023;14:100311. doi:10.1016/j.jpi.2023.100311 PMID: 37214150
  34. Dong X, Wong R, Lyu W, Abell-Hart K, Deng J, Liu Y, et al. An integrated LSTM-HeteroRGNN model for interpretable opioid overdose risk prediction. Artificial Intelligence in Medicine. 2023;135:102439. doi:10.1016/j.artmed.2022.102439 PMID: 36628797
  35. Jain SR, Pei L, Spraggins JM, Angelo M, Carson JP, Gehlenborg N, et al. Advances and prospects for the Human BioMolecular Atlas Program (HuBMAP). Nature Cell Biology. 2023;25(8):1089-1100. doi:10.1038/s41556-023-01194-w PMID: 37468756
  36. Deng J, Yang Z, Wang H, Ojima I, Samaras D, Wang F. A systematic study of key elements underlying molecular property prediction. Nature Communications. 2023;14(1):6395. doi:10.1038/s41467-023-41948-6 PMID: 37833262
  37. Lyu W, Dong X, Wong R, Zheng S, Abell-Hart K, Wang F, et al. A Multimodal Transformer: Fusing Clinical Notes with Structured EHR Data for Interpretable In-Hospital Mortality Prediction. ArXiv. 2023;2022:719-728. doi:10.48550/arxiv.2208.10240 PMID: 37128451
  38. Abell-Hart K, Rashidian S, Teng D, Rosenthal RN, Wang F. Where Opioid Overdose Patients Live Far From Treatment: Geospatial Analysis of Underserved Populations in New York State. JMIR Public Health and Surveillance. 2022;8(4):e32133. doi:10.2196/32133 PMID: 35412467
  39. Li Q, Wang F, Chen Y, Chen H, Wu S, Farris AB, et al. Virtual liver needle biopsy from reconstructed three-dimensional histopathological images: Quantification of sampling error. Computers in Biology and Medicine. 2022;147:105764. doi:10.1016/j.compbiomed.2022.105764 PMID: 35797891
  40. Specimen, Biological Structure, and Spatial Ontologies in Support of a Human Reference Atlas. 2022. doi:10.1101/2022.09.08.507220
  41. Li Z, Zhao M, Das D, ZHAO H, Ma Y, Liu W, et al. Select or Suggest? Reinforcement Learning-based Method for High-Accuracy Target Selection on Touchscreens. Proceedings of the Chi Conference on Human Factors in Computing Systems, Chi. 2022:1-15. doi:10.1145/3491102.3517472
  42. Baig F, Nalluri P, Kong J, Wang F. SPEAR-board. ACM SIGSPATIAL International Conference on Advances in Geographic Information Systems (SIGSPATIAL GIS). 2022:1-4. doi:10.1145/3557915.3561042
  43. SPEAR-Board: Cross-Platform Interactive Spatio-Temporal Big Data Analytics. Acm Sigspatial International Conference on Advances in Geographic Information Systems, Acm Sigspatial Gis. 2022. doi:10.1145/3557915.3561042
  44. Chen L, Teng D, Zhu T, Kong J, Herr BW, Bueckle A, et al. Real-Time Spatial Registration for 3D Human Atlas. Proceedings of the ACM SIGSPATIAL International Workshop on Analytics for Big Geospatial Data, BigSpatial. 2022:27-35. doi:10.1145/3557917.3567618
  45. Real-Time Spatial Registration for 3D Human Atlas. 2022. doi:10.1101/2022.09.27.509335
  46. Yu H, Wang F, Teodoro G, Nickerson JM, Kong J. MultiHeadGAN: A deep learning method for low contrast retinal pigment epithelium cell segmentation with fluorescent flatmount microscopy images. Computers in Biology and Medicine. 2022;146:105596. doi:10.1016/j.compbiomed.2022.105596 PMID: 35617723
  47. Tan Y, Huang J, Zhuang J, Liu Y, Huang H, Yu X, et al. Generalizable deep clustering based on Bi-LSTM with applications to sepsis and acute kidney disease populations. IEEE International Conference on Bioinformatics and Biomedicine (BIBM). 2022;2:1745-1750. doi:10.1109/bibm55620.2022.9995179
  48. Zhao M, Huang HD, Li Z, Liu R, Cui W, Toshniwal K, et al. EyeSayCorrect: Eye Gaze and Voice Based Hands-free Text Correction for Mobile Devices. IUI: International Conference on Intelligent User Interfaces. 2022:470-482. doi:10.1145/3490099.3511103
  49. Teng D, Liang Y, Vo H, Kong J, Wang F. Efficient 3D Spatial Queries for Complex Objects. ACM Transactions on Spatial Algorithms and Systems. 2022;8(2):1-26. doi:10.1145/3502221 PMID: 36072353
  50. Li H, Wang J, Li Z, Dababneh M, Wang F, Zhao P, et al. Deep Learning-Based Pathology Image Analysis Enhances Magee Feature Correlation With Oncotype DX Breast Recurrence Score. Frontiers in Medicine. 2022;9:886763. doi:10.3389/fmed.2022.886763 PMID: 35775006
  51. Deep Learning Based Registration of Serial Whole-slide Histopathology Images in Different Stains. BioRxiv. 2022. doi:10.1101/2022.05.31.494254
  52. Deng J, Yang Z, Ojima I, Samaras D, Wang F. Artificial intelligence in drug discovery: applications and techniques. Briefings in Bioinformatics. 2022;23(1). doi:10.1093/bib/bbab430 PMID: 34734228
  53. Yu H, Sharifai N, Jiang K, Wang F, Teodoro G, Farris AB, et al. Artificial intelligence based liver portal tract region identification and quantification with transplant biopsy whole-slide images. Computers in Biology and Medicine. 2022;150:106089. doi:10.1016/j.compbiomed.2022.106089 PMID: 36137315
  54. Artificial Intelligence based Liver Portal Tract Region Identification and Quantification with Transplant Biopsy Whole-Slide Images. BioRxiv. 2022. doi:10.1101/2022.08.31.506101
  55. Shen A, Wang F, Paul S, Bhuvanapalli D, Alayof J, Farris AB, et al. An integrative web-based software tool for multi-dimensional pathology whole-slide image analytics. Physics in Medicine and Biology. 2022;67(22):224001. doi:10.1088/1361-6560/ac8fde PMID: 36067783
  56. Duanmu H, Bhattarai S, Li H, Shi Z, Wang F, Teodoro G, et al. A spatial attention guided deep learning system for prediction of pathological complete response using breast cancer histopathology images. Bioinformatics. 2022;38(19):4605-4612. doi:10.1093/bioinformatics/btac558 PMID: 35962988
  57. Qi Y, Wang F, Cao JJ, Li YY. A deep learning approach to real-time volumetric measurements without image reconstruction for cardiovascular magnetic resonance. Physiological Measurement. 2022;43(10):105003. doi:10.1088/1361-6579/ac92bc PMID: 36113450
  58. Teng D, Baig F, Hoang V, Liang Y, Kong J, Wang F. 3DPro: Querying Complex Three-Dimensional Data with Progressive Compression and Refinement. PubMed. 2022;25(2):104-117. doi:10.48786/edbt.2022.02 PMID: 36222820

Teaching

CSE532: Theory of Database Systems
BMI513: Imaging Informatics
CSE 393: Introduction to Biomedical Informatics