Joshua Kim

Ujunwa Mgboh, Rafi Ibn Sultan, Joshua Kim et al.

Learning-based fluence map prediction offers a fast alternative to iterative inverse planning in intensity-modulated radiation therapy (IMRT), but its robustness under realistic distribution shifts remains unclear. We study a two-stage transformer pipeline that maps anatomy (CT and contours) to dose and then to beamlet fluence maps. We compare fluence-stage transformer backbones with hierarchical, global, and hybrid attention, trained with a physics-informed loss enforcing energy consistency. Robustness is evaluated under geometric perturbations, radiometric noise, reduced training data, and domain shifts using a prostate IMRT dataset, with additional evaluation of the dose stage on public datasets. Results show smooth degradation under moderate perturbations but sharp failures under severe rotations and noise. Hierarchical transformers (e.g., SwinUNETR) exhibit slower growth in upper-quartile energy error, indicating improved robustness. We further show that SSIM alone fails to capture clinically relevant errors, highlighting the need for physics-informed evaluation.

Ujunwa Mgboh, Rafi Ibn Sultan, Joshua Kim et al.

Fluence map prediction is central to automated radiotherapy planning but remains an ill-posed inverse problem due to the complex relationship between volumetric anatomy and beam-intensity modulation. Convolutional methods in prior work often struggle to capture long-range dependencies, which can lead to structurally inconsistent or physically unrealizable plans. We introduce \textbf{FluenceFormer}, a backbone-agnostic transformer framework for direct, geometry-aware fluence regression. The model uses a unified two-stage design: Stage~1 predicts a global dose prior from anatomical inputs, and Stage~2 conditions this prior on explicit beam geometry to regress physically calibrated fluence maps. Central to the approach is the \textbf{Fluence-Aware Regression (FAR)} loss, a physics-informed objective that integrates voxel-level fidelity, gradient smoothness, structural consistency, and beam-wise energy conservation. We evaluate the generality of the framework across multiple transformer backbones, including Swin UNETR, UNETR, nnFormer, and MedFormer, using a prostate IMRT dataset. FluenceFormer with Swin UNETR achieves the strongest performance among the evaluated models and improves over existing benchmark CNN and single-stage methods, reducing Energy Error to $\mathbf{4.5\%}$ and yielding statistically significant gains in structural fidelity ($p < 0.05$).

Ujunwa Mgboh, Rafi Sultan, Dongxiao Zhu et al.

Accurate fluence map prediction is essential in intensity-modulated radiation therapy (IMRT) to maximize tumor coverage while minimizing dose to healthy tissues. Conventional optimization is time-consuming and dependent on planner expertise. This study presents a deep learning framework that accelerates fluence map generation while maintaining clinical quality. An end-to-end 3D Swin-UNETR network was trained to predict nine-beam fluence maps directly from volumetric CT images and anatomical contours using 99 prostate IMRT cases (79 for training and 20 for testing). The transformer-based model employs hierarchical self-attention to capture both local anatomical structures and long-range spatial dependencies. Predicted fluence maps were imported into the Eclipse Treatment Planning System for dose recalculation, and model performance was evaluated using beam-wise fluence correlation, spatial gamma analysis, and dose-volume histogram (DVH) metrics. The proposed model achieved an average R^2 of 0.95 +/- 0.02, MAE of 0.035 +/- 0.008, and gamma passing rate of 85 +/- 10 percent (3 percent / 3 mm) on the test set, with no significant differences observed in DVH parameters between predicted and clinical plans. The Swin-UNETR framework enables fully automated, inverse-free fluence map prediction directly from anatomical inputs, enhancing spatial coherence, accuracy, and efficiency while offering a scalable and consistent solution for automated IMRT plan generation.

Siddharth Jayashankar, Joshua Kim, Michael B. Sullivan et al.

Encrypted AI using fully homomorphic encryption (FHE) provides strong privacy guarantees; but its slow performance has limited practical deployment. Recent works proposed ASICs to accelerate FHE, but require expensive advanced manufacturing processes that constrain their accessibility. GPUs are a far more accessible platform, but achieving ASIC-level performance using GPUs has remained elusive. Furthermore, state-of-the-art approaches primarily focus on small models that fit comfortably within a single device. Supporting large models such as LLMs in FHE introduces a dramatic increase in computational complexity that requires optimized GPU kernels, along with managing terabyte-scale memory footprints that far exceed the capacity of a single GPU. This paper presents Cerium, a multi-GPU framework for FHE inference on large models. Cerium integrates a domain-specific language, an optimizing compiler, and a runtime system to automatically generate high-performance GPU kernels, manage terabyte-scale memory footprints, and parallelize computation across multiple GPUs. It introduces new IR constructs, compiler passes, sparse polynomial representations, memory-efficient data layouts, and communication-aware parallelization techniques that together enable encrypted inference for models ranging from small CNNs to Llama3-8B. We build Cerium on NVIDIA GPUs and demonstrate significant performance gains. For small models, Cerium outperforms expert-written hand-optimized GPU libraries by up to 2.25 times. Cerium achieves performance competitive with state-of-the-art FHE ASICs, outright matching prior FHE ASIC CraterLake. It is the first GPU system to execute bootstrapping in under 10 milliseconds, achieving 7.5 milliseconds, and is the first to demonstrate encrypted inference for BERT-Base and Llama3-8B in 8 seconds and 134 seconds, respectively.

Humza Nusrat, Luke Francisco, Bing Luo et al.

Stereotactic radiosurgery (SRS) demands precise dose shaping around critical structures, yet black-box AI systems have limited clinical adoption due to opacity concerns. We tested whether chain-of-thought reasoning improves agentic planning in a retrospective cohort of 41 patients with brain metastases treated with 18 Gy single-fraction SRS. We developed SAGE (Secure Agent for Generative Dose Expertise), an LLM-based planning agent for automated SRS treatment planning. Two variants generated plans for each case: one using a non-reasoning model, one using a reasoning model. The reasoning variant showed comparable plan dosimetry relative to human planners on primary endpoints (PTV coverage, maximum dose, conformity index, gradient index; all p > 0.21) while reducing cochlear dose below human baselines (p = 0.022). When prompted to improve conformity, the reasoning model demonstrated systematic planning behaviors including prospective constraint verification (457 instances) and trade-off deliberation (609 instances), while the standard model exhibited none of these deliberative processes (0 and 7 instances, respectively). Content analysis revealed that constraint verification and causal explanation concentrated in the reasoning agent. The optimization traces serve as auditable logs, offering a path toward transparent automated planning.

Humza Nusrat, Bing Luo, Ryan Hall et al.

Radiotherapy treatment planning is a complex and time-intensive process, often impacted by inter-planner variability and subjective decision-making. To address these challenges, we introduce Dose Optimization Language Agent (DOLA), an autonomous large language model (LLM)-based agent designed for optimizing radiotherapy treatment plans while rigorously protecting patient privacy. DOLA integrates the LLaMa3.1 LLM directly with a commercial treatment planning system, utilizing chain-of-thought prompting, retrieval-augmented generation (RAG), and reinforcement learning (RL). Operating entirely within secure local infrastructure, this agent eliminates external data sharing. We evaluated DOLA using a retrospective cohort of 18 prostate cancer patients prescribed 60 Gy in 20 fractions, comparing model sizes (8 billion vs. 70 billion parameters) and optimization strategies (No-RAG, RAG, and RAG+RL) over 10 planning iterations. The 70B model demonstrated significantly improved performance, achieving approximately 16.4% higher final scores than the 8B model. The RAG approach outperformed the No-RAG baseline by 19.8%, and incorporating RL accelerated convergence, highlighting the synergy of retrieval-based memory and reinforcement learning. Optimal temperature hyperparameter analysis identified 0.4 as providing the best balance between exploration and exploitation. This proof of concept study represents the first successful deployment of locally hosted LLM agents for autonomous optimization of treatment plans within a commercial radiotherapy planning system. By extending human-machine interaction through interpretable natural language reasoning, DOLA offers a scalable and privacy-conscious framework, with significant potential for clinical implementation and workflow improvement.