arXiv subjects

Gen Yang

Publications and source records attributed to Gen Yang.

7 recordsLinked to original sources

arXiv2026

Radiology-Report Semantic Modelling and Host-Response Laboratory Biomarkers for Multimodal Survival Prediction in Lung Cancer

TNM staging is essential for lung cancer management, but patients within the same anatomic stage often show heterogeneous survival outcomes. We developed a multimodal adaptive risk score (AMRS) that integrates radiology-report semantics with routinely available clinical laboratory biomarkers. In a retrospective two-center cohort, 1129 patients diagnosed between December 2017 and February 2026 were screened; 574 patients were included after exclusion for short follow-up or missing imaging reports and were split into training (n = 459) and test (n = 115) cohorts. Radiology reports were encoded with a domain-adapted MC-BERT branch to capture imaging-derived semantic information, while clinical and laboratory variables were modeled after Mahalanobis-distance-based imputation using random survival forests. Weighted risk fusion generated the final patient-level score. AMRS achieved C-index values of 0.920 in training and 0.849 in testing, and separated survival trajectories across clinical subgroups and TNM-related strata. SHAP analysis identified hematologic, inflammatory, coagulation, nutritional, tumor-marker, organ-function, and age-related contributors. AMRS may complement TNM staging in imaging-centered oncology workflows, but prospective validation, calibration, ablation testing, and clinical-utility assessment are required before deployment.

physics.med-ph↗

arXiv2026

Patient-Level Diagnosis of Acute Myeloid Leukemia via Deep Learning Analysis of Bone Marrow Smear

Bone marrow smear review remains important for acute myeloid leukemia (AML) assessment, but manual single-cell interpretation is labor-intensive and patient-level diagnosis requires aggregation of many cellular observations. We present a cell-to-patient deep learning pipeline for AML-assisted diagnosis from bone marrow smear images. The study included 258 patients from six anonymized centers, including a main cohort of 169 patients from Centers 1-3 and an external validation cohort of 89 patients from Centers 4-6. A 16-category cell annotation vocabulary was used to describe the global cellular composition, including granulocytic, monocytic, erythroid, lymphoid, eosinophilic, and other cells. Rather than identifying strict AML blasts or leukemic blasts, the model targets an expert-defined composite category termed Composite Blast-like Cells (CBLC), comprising N, N1, M, M1, R, R1, J, and J1 according to the project-wide morphological standard. A fixed YOLO-based segmentation module detected cells, predicted contours were matched to expert polygon annotations by contour IoU, and standardized single-cell crops were generated. An EfficientNet-B0 classifier was trained through a two-stage GT-to-YOLO and YOLO-to-YOLO strategy with class-imbalance correction, center-border regularization, and morphology-assisted supervision. Cell-level predictions were aggregated into patient-level CBLC ratios for AML-oriented diagnostic support. The pipeline achieved stable internal validation and maintained external generalization, with ensemble weighted F1-scores of 0.9076, 0.8696, and 0.9124 on Centers 4, 5, and 6, respectively.

cs.CV↗

arXiv2025

CADIC: Continual Anomaly Detection Based on Incremental Coreset

The primary objective of Continual Anomaly Detection (CAD) is to learn the normal patterns of new tasks under dynamic data distribution assumptions while mitigating catastrophic forgetting. Existing embedding-based CAD approaches continuously update a memory bank with new embeddings to adapt to sequential tasks. However, these methods require constructing class-specific sub-memory banks for each task, which restricts their flexibility and scalability. To address this limitation, we propose a novel CAD framework where all tasks share a unified memory bank. During training, the method incrementally updates embeddings within a fixed-size coreset, enabling continuous knowledge acquisition from sequential tasks without task-specific memory fragmentation. In the inference phase, anomaly scores are computed via a nearest-neighbor matching mechanism, achieving state-of-the-art detection accuracy. We validate the method through comprehensive experiments on MVTec AD and Visa datasets. Results show that our approach outperforms existing baselines, achieving average image-level AUROC scores of 0.972 (MVTec AD) and 0.891 (Visa). Notably, on a real-world electronic paper dataset, it demonstrates 100% accuracy in anomaly sample detection, confirming its robustness in practical scenarios. The implementation will be open-sourced on GitHub.

cs.CV↗

arXiv2025

Large-scale automatic carbon ion treatment planning for head and neck cancers via parallel multi-agent reinforcement learning

Head-and-neck cancer (HNC) planning is difficult because multiple critical organs-at-risk (OARs) are close to complex targets. Intensity-modulated carbon-ion therapy (IMCT) offers superior dose conformity and OAR sparing but remains slow due to relative biological effectiveness (RBE) modeling, leading to laborious, experience-based, and often suboptimal tuning of many treatment-planning parameters (TPPs). Recent deep learning (DL) methods are limited by data bias and plan feasibility, while reinforcement learning (RL) struggles to efficiently explore the exponentially large TPP search space. We propose a scalable multi-agent RL (MARL) framework for parallel tuning of 45 TPPs in IMCT. It uses a centralized-training decentralized-execution (CTDE) QMIX backbone with Double DQN, Dueling DQN, and recurrent encoding (DRQN) for stable learning in a high-dimensional, non-stationary environment. To enhance efficiency, we (1) use compact historical DVH vectors as state inputs, (2) apply a linear action-to-value transform mapping small discrete actions to uniform parameter adjustments, and (3) design an absolute, clinically informed piecewise reward aligned with plan scores. A synchronous multi-process worker system interfaces with the PHOENIX TPS for parallel optimization and accelerated data collection. On a head-and-neck dataset (10 training, 10 testing), the method tuned 45 parameters simultaneously and produced plans comparable to or better than expert manual ones (relative plan score: RL $85.93\pm7.85%$ vs Manual $85.02\pm6.92%$), with significant (p-value $<$ 0.05) improvements for five OARs. The framework efficiently explores high-dimensional TPP spaces and generates clinically competitive IMCT plans through direct TPS interaction, notably improving OAR sparing.

cs.LG↗

arXiv2024

Double-Strand Break Clustering: An Economical and Effective Strategy for DNA Repair

In mammalian cells, repair centers for DNA double-strand breaks (DSBs) have been identified. However, previous researches predominantly rely on methods that induce specific DSBs by cutting particular DNA sequences. The clustering and its spatiotemporal properties of non-specifically DSBs, especially those induced by environmental stresses such as irradiation, remains unclear. In this study, we used Dragonfly microscopy to induce high-precision damage in cells and discovered that DSB clustering during the early stages of DNA damage response (DDR) and repair, but not during the repair plateau phase. Early in DDR, DSB clustered into existing 53BP1 foci. The DSB clustering at different stages has different implications for DNA repair. By controlling the distance between adjacent damage points, we found that the probability of DSB clustering remains constant at distances of 0.8 - 1.4 um, while clustering does not occur beyond 1.4 um. Within the 0.8 um range, the probability of clustering significantly increases due to the phase separation effect of 53BP1. Using a Monte Carlo approach, we developed a dynamic model of 53BP1 foci formation, fission, and fusion. This model accurately predicts experimental outcomes and further demonstrates the temporal and spatial influences on DSB clustering. These results showed that, similarly to specifically induced DSBs, non-specifically induced DSBs can also cluster. The extent of DSB clustering is influenced by both temporal and spatial factors, which provide new insights into the dynamics of DSB clustering and the role of 53BP1 in DNA repair processes. Such findings could enhance our understanding of DNA damage responses and help us improve DNA repair therapies in disease.

physics.bio-ph↗

arXiv2024

Current Views on Mechanisms of the FLASH Effect in Cancer Radiotherapy

FLASH radiotherapy (FLASH-RT) is a new modality of radiotherapy by delivering doses with ultra-high dose rates. FLASH-RT has the ability to suppress tumor growth while sparing normal tissues, known as the FLASH effect. Although FLASH effect has proved valid in various models by different ionizing radiations, the exact underlying mechanism is still unclear. This article summarizes mainstream hypotheses of FLASH effect at physicochemical and biological levels, including oxygen depletion and free radical reactions, nuclear and mitochondria damage, as well as immune response. These hypotheses contribute reasonable explanations to the FLASH effect, and are interconnected according to the chronological order of the organism's response to ionizing radiation. By collating the existing consensus, evidence, and hypotheses, this article provides a comprehensive overview of potential mechanisms of FLASH effect and practical guidance for future investigation in the field of FLASH-RT.

physics.med-ph↗

arXiv2021

Local vaccination and systemic tumor suppression via irradiation and manganese adjuvant in mice

Presently 4T-1 luc cells were irradiated with proton under ultra-high dose rate FLASH or with gamma-ray with conventional dose rate, and then subcutaneous vaccination with or without Mn immuno-enhancing adjuvant into the mice for three times. One week later, we injected untreated 4T-1 luc cells on the other side of the vaccinated mice, and found that the untreated 4T-1 luc cells injected later nearly totally did not grow tumor (1/17) while controls without previous vaccination all grow tumors (18/18). The result is very interesting and the findings may help to explore in situ tumor vaccination as well as new combined radiotherapy strategies to effectively ablate primary and disseminated tumors. To our limited knowledge, this is the first paper reporting the high efficiency induction of systemic vaccination suppressing the metastasized/disseminated tumor progression.

physics.med-ph↗