arXiv subjects

Yihang Zhou

Publications and source records attributed to Yihang Zhou.

34 records · Page 2Linked to original sources

arXiv2025

K-space Diffusion Model Based MR Reconstruction Method for Simultaneous Multislice Imaging

Simultaneous Multi-Slice(SMS) is a magnetic resonance imaging (MRI) technique which excites several slices concurrently using multiband radiofrequency pulses to reduce scanning time. However, due to its variable data structure and difficulty in acquisition, it is challenging to integrate SMS data as training data into deep learning frameworks.This study proposed a novel k-space diffusion model of SMS reconstruction that does not utilize SMS data for training. Instead, it incorporates Slice GRAPPA during the sampling process to reconstruct SMS data from different acquisition modes.Our results demonstrated that this method outperforms traditional SMS reconstruction methods and can achieve higher acceleration factors without in-plane aliasing.

eess.IV↗

arXiv2025

Genomic and pathological analyses of an asymmetric true hermaphroditism case in a female labrador retriever

The two main gonadal development disorders in dogs are true hermaphroditism and XX male syndrome. True hermaphroditism can be divided into two subcategories: XX sex reversal and XY sex reversal. XX Sry-negative sex reversal is more common, and it is characterized by the presence of both ovarian and testicular tissues in an animal. To date, there are 16 cases of true hermaphroditism reported in the literature, 15 of which are XX true hermaphroditism. Hermaphroditism has not been formally documented in labrador retrievers, and no case of asymmetric hermaphroditism has been reported in the literature.

q-bio.QM↗

arXiv2024

Image Synthesis with Class-Aware Semantic Diffusion Models for Surgical Scene Segmentation

Surgical scene segmentation is essential for enhancing surgical precision, yet it is frequently compromised by the scarcity and imbalance of available data. To address these challenges, semantic image synthesis methods based on generative adversarial networks and diffusion models have been developed. However, these models often yield non-diverse images and fail to capture small, critical tissue classes, limiting their effectiveness. In response, we propose the Class-Aware Semantic Diffusion Model (CASDM), a novel approach which utilizes segmentation maps as conditions for image synthesis to tackle data scarcity and imbalance. Novel class-aware mean squared error and class-aware self-perceptual loss functions have been defined to prioritize critical, less visible classes, thereby enhancing image quality and relevance. Furthermore, to our knowledge, we are the first to generate multi-class segmentation maps using text prompts in a novel fashion to specify their contents. These maps are then used by CASDM to generate surgical scene images, enhancing datasets for training and validating segmentation models. Our evaluation, which assesses both image quality and downstream segmentation performance, demonstrates the strong effectiveness and generalisability of CASDM in producing realistic image-map pairs, significantly advancing surgical scene segmentation across diverse and challenging datasets.

cs.CV↗

arXiv2024

Score-based Diffusion Models With Self-supervised Learning For Accelerated 3D Multi-contrast Cardiac Magnetic Resonance Imaging

Long scan time significantly hinders the widespread applications of three-dimensional multi-contrast cardiac magnetic resonance (3D-MC-CMR) imaging. This study aims to accelerate 3D-MC-CMR acquisition by a novel method based on score-based diffusion models with self-supervised learning. Specifically, we first establish a mapping between the undersampled k-space measurements and the MR images, utilizing a self-supervised Bayesian reconstruction network. Secondly, we develop a joint score-based diffusion model on 3D-MC-CMR images to capture their inherent distribution. The 3D-MC-CMR images are finally reconstructed using the conditioned Langenvin Markov chain Monte Carlo sampling. This approach enables accurate reconstruction without fully sampled training data. Its performance was tested on the dataset acquired by a 3D joint myocardial T1 and T1rho mapping sequence. The T1 and T1rho maps were estimated via a dictionary matching method from the reconstructed images. Experimental results show that the proposed method outperforms traditional compressed sensing and existing self-supervised deep learning MRI reconstruction methods. It also achieves high quality T1 and T1rho parametric maps close to the reference maps, even at a high acceleration rate of 14.

eess.SP↗

arXiv2024

Quantum Neural Network for Accelerated Magnetic Resonance Imaging

Magnetic resonance image reconstruction starting from undersampled k-space data requires the recovery of many potential nonlinear features, which is very difficult for algorithms to recover these features. In recent years, the development of quantum computing has discovered that quantum convolution can improve network accuracy, possibly due to potential quantum advantages. This article proposes a hybrid neural network containing quantum and classical networks for fast magnetic resonance imaging, and conducts experiments on a quantum computer simulation system. The experimental results indicate that the hybrid network has achieved excellent reconstruction results, and also confirm the feasibility of applying hybrid quantum-classical neural networks into the image reconstruction of rapid magnetic resonance imaging.

eess.IV↗

arXiv2024

Optimized Magnetic Resonance Fingerprinting Using Ziv-Zakai Bound

Magnetic Resonance Fingerprinting (MRF) has emerged as a promising quantitative imaging technique within the field of Magnetic Resonance Imaging (MRI), offers comprehensive insights into tissue properties by simultaneously acquiring multiple tissue parameter maps in a single acquisition. Sequence optimization is crucial for improving the accuracy and efficiency of MRF. In this work, a novel framework for MRF sequence optimization is proposed based on the Ziv-Zakai bound (ZZB). Unlike the Cramér-Rao bound (CRB), which aims to enhance the quality of a single fingerprint signal with deterministic parameters, ZZB provides insights into evaluating the minimum mismatch probability for pairs of fingerprint signals within the specified parameter range in MRF. Specifically, the explicit ZZB is derived to establish a lower bound for the discrimination error in the fingerprint signal matching process within MRF. This bound illuminates the intrinsic limitations of MRF sequences, thereby fostering a deeper understanding of existing sequence performance. Subsequently, an optimal experiment design problem based on ZZB was formulated to ascertain the optimal scheme of acquisition parameters, maximizing discrimination power of MRF between different tissue types. Preliminary numerical experiments show that the optimized ZZB scheme outperforms both the conventional and CRB schemes in terms of the reconstruction accuracy of multiple parameter maps.

eess.IV↗

arXiv2024

Pediatric TSC-Related Epilepsy Classification from Clinical MR Images Using Quantum Neural Network

Tuberous sclerosis complex (TSC) manifests as a multisystem disorder with significant neurological implications. This study addresses the critical need for robust classification models tailored to TSC in pediatric patients, introducing QResNet,a novel deep learning model seamlessly integrating conventional convolutional neural networks with quantum neural networks. The model incorporates a two-layer quantum layer (QL), comprising ZZFeatureMap and Ansatz layers, strategically designed for processing classical data within a quantum framework. A comprehensive evaluation, demonstrates the superior performance of QResNet in TSC MRI image classification compared to conventional 3D-ResNet models. These compelling findings underscore the potential of quantum computing to revolutionize medical imaging and diagnostics.Remarkably, this method surpasses conventional CNNs in accuracy and Area Under the Curve (AUC) metrics with the current dataset. Future research endeavors may focus on exploring the scalability and practical implementation of quantum algorithms in real-world medical imaging scenarios.

eess.IV↗

arXiv2024

MR Optimized Reconstruction of Simultaneous Multi-Slice Imaging Using Diffusion Model

Diffusion model has been successfully applied to MRI reconstruction, including single and multi-coil acquisition of MRI data. Simultaneous multi-slice imaging (SMS), as a method for accelerating MR acquisition, can significantly reduce scanning time, but further optimization of reconstruction results is still possible. In order to optimize the reconstruction of SMS, we proposed a method to use diffusion model based on slice-GRAPPA and SPIRiT method. approach: Specifically, our method characterizes the prior distribution of SMS data by score matching and characterizes the k-space redundant prior between coils and slices based on self-consistency. With the utilization of diffusion model, we achieved better reconstruction results.The application of diffusion model can further reduce the scanning time of MRI without compromising image quality, making it more advantageous for clinical application

eess.IV↗

arXiv2024

Joint PET-MRI Reconstruction with Diffusion Stochastic Differential Model

PET suffers from a low signal-to-noise ratio. Meanwhile, the k-space data acquisition process in MRI is time-consuming by PET-MRI systems. We aim to accelerate MRI and improve PET image quality. This paper proposed a novel joint reconstruction model by diffusion stochastic differential equations based on learning the joint probability distribution of PET and MRI. Compare the results underscore the qualitative and quantitative improvements our model brings to PET and MRI reconstruction, surpassing the current state-of-the-art methodologies. Joint PET-MRI reconstruction is a challenge in the PET-MRI system. This studies focused on the relationship extends beyond edges. In this study, PET is generated from MRI by learning joint probability distribution as the relationship.

cs.CV↗

arXiv2024

Joint Diffusion: Mutual Consistency-Driven Diffusion Model for PET-MRI Co-Reconstruction

Positron Emission Tomography and Magnetic Resonance Imaging (PET-MRI) systems can obtain functional and anatomical scans. PET suffers from a low signal-to-noise ratio. Meanwhile, the k-space data acquisition process in MRI is time-consuming. The study aims to accelerate MRI and enhance PET image quality. Conventional approaches involve the separate reconstruction of each modality within PET-MRI systems. However, there exists complementary information among multi-modal images. The complementary information can contribute to image reconstruction. In this study, we propose a novel PET-MRI joint reconstruction model employing a mutual consistency-driven diffusion mode, namely MC-Diffusion. MC-Diffusion learns the joint probability distribution of PET and MRI for utilizing complementary information. We conducted a series of contrast experiments about LPLS, Joint ISAT-net and MC-Diffusion by the ADNI dataset. The results underscore the qualitative and quantitative improvements achieved by MC-Diffusion, surpassing the state-of-the-art method.

eess.IV↗

arXiv2024

Metagenomic analysis revealed significant changes in cattle rectum microbiome and antimicrobial resistome under fescue toxicosis

Fescue toxicity causes reduced growth and reproductive issues in cattle grazing endophyte-infected tall fescue. To characterize the gut microbiota and its response to fescue toxicosis, we collected fecal samples before and after a 30-days toxic fescue seeds supplementation from eight Angus Simmental pregnant cows and heifers. We sequenced the 16 metagenomes using the whole-genome shotgun approach and generated 157 Gbp of metagenomic sequences. Through de novo assembly and annotation, we obtained a 13.1 Gbp reference contig assembly and identified 22 million microbial genes for cattle rectum microbiota. We discovered a significant reduction of microbial diversity after toxic seed treatment (P<0.01), suggesting dysbiosis of the microbiome. Six bacterial families and 31 species are significantly increased in the fecal microbiota (P-adj<0.05), including members of the top abundant rumen core taxa. This global elevation of rumen microbes in the rectum microbiota suggests a potential impairment of rumen microbiota under fescue toxicosis. Among these, Ruminococcaceae bacterium P7, an important species accounting for ~2% of rumen microbiota, was the most impacted with a 16-fold increase from 0.17% to 2.8% in feces (P<0.01). We hypothesized that rumen Ruminococcaceae bacterium P7 re-adapted to the large intestine environment under toxic fescue stress, causing this dramatic increase in abundance. Functional enrichment analysis revealed that the overrepresented pathways shifted from energy metabolism to antimicrobial resistance and DNA replication. In conclusion, we discovered dramatic microbiota alterations in composition, abundance, and functional capacities under fescue toxicosis, and our results suggest Ruminococcaceae bacterium P7 as a potential biomarker for fescue toxicosis management.

q-bio.GN↗

arXiv2024

Metagenomic analysis reveals shared and distinguishing features in horse and donkey gut microbiome and maternal resemblance of the microbiota in hybrid equids

Mammalian gut microbiomes are essential for host functions like digestion, immunity, and nutrient utilization. This study examines the gut microbiome of horses, donkeys, and their hybrids, mules and hinnies, to explore the role of microbiomes in hybrid vigor. We performed whole-genome sequencing on rectal microbiota from 18 equids, generating detailed microbiome assemblies. Our analysis revealed significant differences between horse and donkey microbiomes, with hybrids showing a pronounced maternal resemblance. Notably, Firmicutes were more abundant in the horse-maternal group, while Fibrobacteres were richer in the donkey-maternal group, indicating distinct digestive processes. Functional annotations indicated metabolic differences, such as protein synthesis in horses and energy metabolism in donkeys. Machine learning predictions of probiotic species highlighted potential health benefits for each maternal group. This study provides a high-resolution view of the equid gut microbiome, revealing significant taxonomic and metabolic differences influenced by maternal lineage, and offers insights into microbial contributions to hybrid vigor.

q-bio.GN↗

arXiv2024

Synthesizing PET images from High-field and Ultra-high-field MR images Using Joint Diffusion Attention Model

MRI and PET are crucial diagnostic tools for brain diseases, as they provide complementary information on brain structure and function. However, PET scanning is costly and involves radioactive exposure, resulting in a lack of PET. Moreover, simultaneous PET and MRI at ultra-high-field are currently hardly infeasible. Ultra-high-field imaging has unquestionably proven valuable in both clinical and academic settings, especially in the field of cognitive neuroimaging. These motivate us to propose a method for synthetic PET from high-filed MRI and ultra-high-field MRI. From a statistical perspective, the joint probability distribution (JPD) is the most direct and fundamental means of portraying the correlation between PET and MRI. This paper proposes a novel joint diffusion attention model which has the joint probability distribution and attention strategy, named JDAM. JDAM has a diffusion process and a sampling process. The diffusion process involves the gradual diffusion of PET to Gaussian noise by adding Gaussian noise, while MRI remains fixed. JPD of MRI and noise-added PET was learned in the diffusion process. The sampling process is a predictor-corrector. PET images were generated from MRI by JPD of MRI and noise-added PET. The predictor is a reverse diffusion process and the corrector is Langevin dynamics. Experimental results on the public Alzheimer's Disease Neuroimaging Initiative (ADNI) dataset demonstrate that the proposed method outperforms state-of-the-art CycleGAN for high-field MRI (3T MRI). Finally, synthetic PET images from the ultra-high-field (5T MRI and 7T MRI) be attempted, providing a possibility for ultra-high-field PET-MRI imaging.

cs.LG↗

arXiv2023

Physics-Informed DeepMRI: Bridging the Gap from Heat Diffusion to k-Space Interpolation

In the field of parallel imaging (PI), alongside image-domain regularization methods, substantial research has been dedicated to exploring $k$-space interpolation. However, the interpretability of these methods remains an unresolved issue. Furthermore, these approaches currently face acceleration limitations that are comparable to those experienced by image-domain methods. In order to enhance interpretability and overcome the acceleration limitations, this paper introduces an interpretable framework that unifies both $k$-space interpolation techniques and image-domain methods, grounded in the physical principles of heat diffusion equations. Building upon this foundational framework, a novel $k$-space interpolation method is proposed. Specifically, we model the process of high-frequency information attenuation in $k$-space as a heat diffusion equation, while the effort to reconstruct high-frequency information from low-frequency regions can be conceptualized as a reverse heat equation. However, solving the reverse heat equation poses a challenging inverse problem. To tackle this challenge, we modify the heat equation to align with the principles of magnetic resonance PI physics and employ the score-based generative method to precisely execute the modified reverse heat diffusion. Finally, experimental validation conducted on publicly available datasets demonstrates the superiority of the proposed approach over traditional $k$-space interpolation methods, deep learning-based $k$-space interpolation methods, and conventional diffusion models in terms of reconstruction accuracy, particularly in high-frequency regions.

cs.CV↗

arXiv2023

Dynamic Dual-Graph Fusion Convolutional Network For Alzheimer's Disease Diagnosis

In this paper, a dynamic dual-graph fusion convolutional network is proposed to improve Alzheimer's disease (AD) diagnosis performance. The following are the paper's main contributions: (a) propose a novel dynamic GCN architecture, which is an end-to-end pipeline for diagnosis of the AD task; (b) the proposed architecture can dynamically adjust the graph structure for GCN to produce better diagnosis outcomes by learning the optimal underlying latent graph; (c) incorporate feature graph learning and dynamic graph learning, giving those useful features of subjects more weight while decreasing the weights of other noise features. Experiments indicate that our model provides flexibility and stability while achieving excellent classification results in AD diagnosis.

eess.IV↗

arXiv2022

Yield Evaluation of Citrus Fruits based on the YoloV5 compressed by Knowledge Distillation

In the field of planting fruit trees, pre-harvest estimation of fruit yield is important for fruit storage and price evaluation. However, considering the cost, the yield of each tree cannot be assessed by directly picking the immature fruit. Therefore, the problem is a very difficult task. In this paper, a fruit counting and yield assessment method based on computer vision is proposed for citrus fruit trees as an example. Firstly, images of single fruit trees from different angles are acquired and the number of fruits is detected using a deep Convolutional Neural Network model YOLOv5, and the model is compressed using a knowledge distillation method. Then, a linear regression method is used to model yield-related features and evaluate yield. Experiments show that the proposed method can accurately count fruits and approximate the yield.

cs.CV↗