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Yuanyuan Peng

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Published work

3 published item(s)

preprint2026arXiv

Polygon-mamba: Retinal vessel segmentation using polygon scanning mamba and space-frequency collaborative attention

Retinal vessel segmentation is crucial for diagnosis and assessment of ocular diseases. Notably, segmentation of small retinal vessels has been consistently recognized as a challenging and complex task. To tackle this challenge, we design a hybrid CNN-Mamba fusion network that integrates polygon scanning mamba and space-frequency collaborative attention mechanism for the detection of small vessels. Considering that the traditional mamba architecture with horizontal-vertical scanning may compromise the topological integrity of target structures and result in local discontinuities in small retinal vessels, we present a polygon scanning visual state space model (PS-VSS) to identify small vessel structural features by multi-layer reverse scanning way. Which effectively preserves pixels connectivity, thereby substantially mitigating the loss of information pertaining to small vessels. Furthermore, as we all known that the spatial domain prioritizes positional and structural information, while the frequency domain emphasizes global perception and local detail components, a space-frequency collaborative attention mechanism (SFCAM) is introduced within the skip connection to extract efficient features from the spatial and frequency domains. This strategy empowers the model to dynamically enhance the key features while effectively suppressing clutters. To assess the efficacy of our model, it was tested on three publicly available datasets: DRIVE, STARE, and CHASE_DB1. Compared to manual annotations, our model demonstrated F1 scores of 0.8283, 0.8282, and 0.8251, Area Under Curve (AUC) values of 0.9806, 0.9840, and 0.9866, and Sensitivity (SE) values of of 0.8268, 0.8314, and 0.8484 across three datasets, respectively. The effectiveness of our model was validated through both visual inspection and quantitative analysis.

preprint2022arXiv

Pulmonary Fissure Segmentation in CT Images Based on ODoS Filter and Shape Features

Priori knowledge of pulmonary anatomy plays a vital role in diagnosis of lung diseases. In CT images, pulmonary fissure segmentation is a formidable mission due to various of factors. To address the challenge, an useful approach based on ODoS filter and shape features is presented for pulmonary fissure segmentation. Here, we adopt an ODoS filter by merging the orientation information and magnitude information to highlight structure features for fissure enhancement, which can effectively distinguish between pulmonary fissures and clutters. Motivated by the fact that pulmonary fissures appear as linear structures in 2D space and planar structures in 3D space in orientation field, an orientation curvature criterion and an orientation partition scheme are fused to separate fissure patches and other structures in different orientation partition, which can suppress parts of clutters. Considering the shape difference between pulmonary fissures and tubular structures in magnitude field, a shape measure approach and a 3D skeletonization model are combined to segment pulmonary fissures for clutters removal. When applying our scheme to 55 chest CT scans which acquired from a publicly available LOLA11 datasets, the median F1-score, False Discovery Rate (FDR), and False Negative Rate (FNR) respectively are 0.896, 0.109, and 0.100, which indicates that the presented method has a satisfactory pulmonary fissure segmentation performance.

preprint2015arXiv

Temperature compensation via cooperative stability in protein degradation

Temperature compensation is a notable property of circadian oscillators that indicates the insensitivity of the oscillator system's period to temperature changes; the underlying mechanism, however, is still unclear. We investigated the influence of protein dimerization and cooperative stability in protein degradation on the temperature compensation ability of two oscillators. Here, cooperative stability means that high-order oligomers are more stable than their monomeric counterparts. The period of an oscillator is affected by the parameters of the dynamic system, which in turn are influenced by temperature. We adopted the Repressilator and the Atkinson oscillator to analyze the temperature sensitivity of their periods. Phase sensitivity analysis was employed to evaluate the period variations of different models induced by perturbations to the parameters. Furthermore, we used experimental data provided by other studies to determine the reasonable range of parameter temperature sensitivity. We then applied the linear programming method to the oscillatory systems to analyze the effects of protein dimerization and cooperative stability on the temperature sensitivity of their periods, which reflects the ability of temperature compensation in circadian rhythms. Our study explains the temperature compensation mechanism for circadian clocks. Compared with the no-dimer mathematical model and linear model for protein degradation, our theoretical results show that the nonlinear protein degradation caused by cooperative stability is more beneficial for realizing temperature compensation of the circadian clock.