arXiv subjects

Xinyang Liu

Publications and source records attributed to Xinyang Liu.

At least 55 records · Page 3Linked to original sources

arXiv2024

Magnetic Resonance Imaging Feature-Based Subtyping and Model Ensemble for Enhanced Brain Tumor Segmentation

Accurate and automatic segmentation of brain tumors in multi-parametric magnetic resonance imaging (mpMRI) is essential for quantitative measurements, which play an increasingly important role in clinical diagnosis and prognosis. The International Brain Tumor Segmentation (BraTS) Challenge 2024 offers a unique benchmarking opportunity, including various types of brain tumors in both adult and pediatric populations, such as pediatric brain tumors (PED), meningiomas (MEN-RT) and brain metastases (MET), among others. Compared to previous editions, BraTS 2024 has implemented changes to substantially increase clinical relevance, such as refined tumor regions for evaluation. We propose a deep learning-based ensemble approach that integrates state-of-the-art segmentation models. Additionally, we introduce innovative, adaptive pre- and post-processing techniques that employ MRI-based radiomic analyses to differentiate tumor subtypes. Given the heterogeneous nature of the tumors present in the BraTS datasets, this approach enhances the precision and generalizability of segmentation models. On the final testing sets, our method achieved mean lesion-wise Dice similarity coefficients of 0.926, 0.801, and 0.688 for the whole tumor in PED, MEN-RT, and MET, respectively. These results demonstrate the effectiveness of our approach in improving segmentation performance and generalizability for various brain tumor types. The source code of our implementation is available at https://github.com/Precision-Medical-Imaging-Group/HOPE-Segmenter-Kids. Additionally, an open-source web-application is accessible at https://segmenter.hope4kids.io/ which uses the docker container aparida12/brats-peds-2024:v20240913 .

eess.IV↗

arXiv2024

Adult Glioma Segmentation in Sub-Saharan Africa using Transfer Learning on Stratified Finetuning Data

Gliomas, a kind of brain tumor characterized by high mortality, present substantial diagnostic challenges in low- and middle-income countries, particularly in Sub-Saharan Africa. This paper introduces a novel approach to glioma segmentation using transfer learning to address challenges in resource-limited regions with minimal and low-quality MRI data. We leverage pre-trained deep learning models, nnU-Net and MedNeXt, and apply a stratified fine-tuning strategy using the BraTS2023-Adult-Glioma and BraTS-Africa datasets. Our method exploits radiomic analysis to create stratified training folds, model training on a large brain tumor dataset, and transfer learning to the Sub-Saharan context. A weighted model ensembling strategy and adaptive post-processing are employed to enhance segmentation accuracy. The evaluation of our proposed method on unseen validation cases on the BraTS-Africa 2024 task resulted in lesion-wise mean Dice scores of 0.870, 0.865, and 0.926, for enhancing tumor, tumor core, and whole tumor regions and was ranked first for the challenge. Our approach highlights the ability of integrated machine-learning techniques to bridge the gap between the medical imaging capabilities of resource-limited countries and established developed regions. By tailoring our methods to a target population's specific needs and constraints, we aim to enhance diagnostic capabilities in isolated environments. Our findings underscore the importance of approaches like local data integration and stratification refinement to address healthcare disparities, ensure practical applicability, and enhance impact. A dockerized version of the BraTS-Africa 2024 winning algorithm is available at https://hub.docker.com/r/aparida12/brats-ssa-2024 .

eess.IV↗

arXiv2024

SemiDFL: A Semi-Supervised Paradigm for Decentralized Federated Learning

Decentralized federated learning (DFL) realizes cooperative model training among connected clients without relying on a central server, thereby mitigating communication bottlenecks and eliminating the single-point failure issue present in centralized federated learning (CFL). Most existing work on DFL focuses on supervised learning, assuming each client possesses sufficient labeled data for local training. However, in real-world applications, much of the data is unlabeled. We address this by considering a challenging yet practical semisupervised learning (SSL) scenario in DFL, where clients may have varying data sources: some with few labeled samples, some with purely unlabeled data, and others with both. In this work, we propose SemiDFL, the first semi-supervised DFL method that enhances DFL performance in SSL scenarios by establishing a consensus in both data and model spaces. Specifically, we utilize neighborhood information to improve the quality of pseudo-labeling, which is crucial for effectively leveraging unlabeled data. We then design a consensusbased diffusion model to generate synthesized data, which is used in combination with pseudo-labeled data to create mixed datasets. Additionally, we develop an adaptive aggregation method that leverages the model accuracy of synthesized data to further enhance SemiDFL performance. Through extensive experimentation, we demonstrate the remarkable performance superiority of the proposed DFL-Semi method over existing CFL and DFL schemes in both IID and non-IID SSL scenarios.

cs.LG↗

arXiv2024

YbNi$_4$Mg: Superheavy fermion with enhanced Wilson ratio and magnetocaloric effect

A comprehensive study of the low-temperature properties of YbNi$_4$Mg has revealed evidence of a superheavy-fermion state, characterized by a large electronic specific-heat coefficient $γ_0$ $\approx$ 5.65 J mol$^{-1}$ K$^{-2}$ and an elevated Wilson ratio $R_W$ = 32.1. No magnetic ordering was observed down to 70 mK; however, a broad maximum appears in the specific heat at $T^*$ = 0.3 K, along with a shoulder in the derivative of susceptibility d$χ$/d$T$ and resistivity d$ρ$/d$T$. These features indicate a cooperative yet short-ranged magnetism entwined with the superheavy Fermi liquid. The large Wilson ratio, which is also detected in other superheavy-fermion compounds lacking long-range order, might be a signature of residual spin fluctuations. Applying a weak magnetic field of $\sim$0.1 T induces a metamagnetic-like crossover, as demonstrated by the quasi-adiabatic demagnetization measurements showing a broad minimum in the temperature-field trace. Here, an enhanced magnetocaloric cooling effect stemming from the field-sensitive superheavy-fermion state is observed, rivaling that of the well-established insulating magnetic coolants like the rare-earth garnet Gd$_3$Ga$_5$O$_{12}$.

cond-mat.str-el↗

arXiv2024

The Brain Tumor Segmentation (BraTS-METS) Challenge 2023: Brain Metastasis Segmentation on Pre-treatment MRI

The translation of AI-generated brain metastases (BM) segmentation into clinical practice relies heavily on diverse, high-quality annotated medical imaging datasets. The BraTS-METS 2023 challenge has gained momentum for testing and benchmarking algorithms using rigorously annotated internationally compiled real-world datasets. This study presents the results of the segmentation challenge and characterizes the challenging cases that impacted the performance of the winning algorithms. Untreated brain metastases on standard anatomic MRI sequences (T1, T2, FLAIR, T1PG) from eight contributed international datasets were annotated in stepwise method: published UNET algorithms, student, neuroradiologist, final approver neuroradiologist. Segmentations were ranked based on lesion-wise Dice and Hausdorff distance (HD95) scores. False positives (FP) and false negatives (FN) were rigorously penalized, receiving a score of 0 for Dice and a fixed penalty of 374 for HD95. Eight datasets comprising 1303 studies were annotated, with 402 studies (3076 lesions) released on Synapse as publicly available datasets to challenge competitors. Additionally, 31 studies (139 lesions) were held out for validation, and 59 studies (218 lesions) were used for testing. Segmentation accuracy was measured as rank across subjects, with the winning team achieving a LesionWise mean score of 7.9. Common errors among the leading teams included false negatives for small lesions and misregistration of masks in space.The BraTS-METS 2023 challenge successfully curated well-annotated, diverse datasets and identified common errors, facilitating the translation of BM segmentation across varied clinical environments and providing personalized volumetric reports to patients undergoing BM treatment.

q-bio.OT↗

arXiv2024

Successive magnetic transitions in the spin-5/2 easy-axis triangular-lattice antiferromagnet Na$_2$BaMn(PO$_4$)$_2$: A neutron diffraction study

Motivated by the recent observations of various exotic quantum states in the equilateral triangular-lattice phosphates Na$_2$BaCo(PO$_4$)$_2$ with $J\rm_{eff}$ = 1/2 and Na$_2$BaNi(PO$_4$)$_2$ with $S$ = 1, the magnetic properties of spin-5/2 antiferromagnet Na$_2$BaMn(PO$_4$)$_2$, their classical counterpart, are comprehensively investigated experimentally. DC magnetization and specific heat measurements on polycrystalline samples indicate two successive magnetic transitions at $T\rm_{N1}$ $\approx$ 1.13 K and $T\rm_{N2}$ $\approx$ 1.28 K, respectively. Zero-field neutron powder diffraction measurement at 67 mK reveals a Y-like spin configuration as its ground-state magnetic structure, with both the $ab$-plane and $c$-axis components of the Mn$^{2+}$ moments long-range ordered. The incommensurate magnetic propagation vector $k$ shows a dramatic change for the intermediate phase between $T\rm_{N1}$ and $T\rm_{N2}$, in which the spin state is speculated to change into a collinear structure with only the $c$-axis moments ordered, as stabilized by thermal fluctuations. The successive magnetic transitions observed in Na$_2$BaMn(PO$_4$)$_2$ are in line with the expectation for a triangle-lattice antiferromagnet with an easy-axis magnetic anisotropy.

cond-mat.str-el↗

arXiv2024

Human-Aware Physical Human-Robot Collaborative Transportation and Manipulation with Multiple Aerial Robots

Human-robot interaction will play an essential role in various industries and daily tasks, enabling robots to effectively collaborate with humans and reduce their physical workload. Most of the existing approaches for physical human-robot interaction focus on collaboration between a human and a single ground or aerial robot. In recent years, very little progress has been made in this research area when considering multiple aerial robots, which offer increased versatility and mobility. This paper proposes a novel approach for physical human-robot collaborative transportation and manipulation of a cable-suspended payload with multiple aerial robots. The proposed method enables smooth and intuitive interaction between the transported objects and a human worker. In the same time, we consider distance constraints during the operations by exploiting the internal redundancy of the multi-robot transportation system. The key elements of our approach are (a) a collaborative payload external wrench estimator that does not rely on any force sensor; (b) a 6D admittance controller for human-aerial-robot collaborative transportation and manipulation; (c) a human-aware force distribution that exploits the internal system redundancy to guarantee the execution of additional tasks such inter-human-robot separation without affecting the payload trajectory tracking or quality of interaction. We validate the approach through extensive simulation and real-world experiments. These include scenarios where the robot team assists the human in transporting and manipulating a load, or where the human helps the robot team navigate the environment. We experimentally demonstrate for the first time, to the best of our knowledge, that our approach enables a quadrotor team to physically collaborate with a human in manipulating a payload in all 6 DoF in collaborative human-robot transportation and manipulation tasks.

cs.RO↗

arXiv2024

The Brain Tumor Segmentation (BraTS) Challenge 2023: Brain MR Image Synthesis for Tumor Segmentation (BraSyn)

Automated brain tumor segmentation methods have become well-established and reached performance levels offering clear clinical utility. These methods typically rely on four input magnetic resonance imaging (MRI) modalities: T1-weighted images with and without contrast enhancement, T2-weighted images, and FLAIR images. However, some sequences are often missing in clinical practice due to time constraints or image artifacts, such as patient motion. Consequently, the ability to substitute missing modalities and gain segmentation performance is highly desirable and necessary for the broader adoption of these algorithms in the clinical routine. In this work, we present the establishment of the Brain MR Image Synthesis Benchmark (BraSyn) in conjunction with the Medical Image Computing and Computer-Assisted Intervention (MICCAI) 2023. The primary objective of this challenge is to evaluate image synthesis methods that can realistically generate missing MRI modalities when multiple available images are provided. The ultimate aim is to facilitate automated brain tumor segmentation pipelines. The image dataset used in the benchmark is diverse and multi-modal, created through collaboration with various hospitals and research institutions.

eess.IV↗

arXiv2024

Scalable Weibull Graph Attention Autoencoder for Modeling Document Networks

Although existing variational graph autoencoders (VGAEs) have been widely used for modeling and generating graph-structured data, most of them are still not flexible enough to approximate the sparse and skewed latent node representations, especially those of document relational networks (DRNs) with discrete observations. To analyze a collection of interconnected documents, a typical branch of Bayesian models, specifically relational topic models (RTMs), has proven their efficacy in describing both link structures and document contents of DRNs, which motives us to incorporate RTMs with existing VGAEs to alleviate their potential issues when modeling the generation of DRNs. In this paper, moving beyond the sophisticated approximate assumptions of traditional RTMs, we develop a graph Poisson factor analysis (GPFA), which provides analytic conditional posteriors to improve the inference accuracy, and extend GPFA to a multi-stochastic-layer version named graph Poisson gamma belief network (GPGBN) to capture the hierarchical document relationships at multiple semantic levels. Then, taking GPGBN as the decoder, we combine it with various Weibull-based graph inference networks, resulting in two variants of Weibull graph auto-encoder (WGAE), equipped with model inference algorithms. Experimental results demonstrate that our models can extract high-quality hierarchical latent document representations and achieve promising performance on various graph analytic tasks.

cs.LG↗

arXiv2024

Advancing Graph Generation through Beta Diffusion

Diffusion models have excelled in generating natural images and are now being adapted to a variety of data types, including graphs. However, conventional models often rely on Gaussian or categorical diffusion processes, which can struggle to accommodate the mixed discrete and continuous components characteristic of graph data. Graphs typically feature discrete structures and continuous node attributes that often exhibit rich statistical patterns, including sparsity, bounded ranges, skewed distributions, and long-tailed behavior. To address these challenges, we introduce Graph Beta Diffusion (GBD), a generative model specifically designed to handle the diverse nature of graph data. GBD leverages a beta diffusion process, effectively modeling both continuous and discrete elements. Additionally, we propose a modulation technique that enhances the realism of generated graphs by stabilizing critical graph topology while maintaining flexibility for other components. GBD competes strongly with existing models across multiple general and biochemical graph benchmarks, showcasing its ability to capture the intricate balance between discrete and continuous features inherent in real-world graph data. The PyTorch code is available on GitHub.

cs.LG↗

arXiv2024

The Brain Tumor Segmentation (BraTS) Challenge: Local Synthesis of Healthy Brain Tissue via Inpainting

A myriad of algorithms for the automatic analysis of brain MR images is available to support clinicians in their decision-making. For brain tumor patients, the image acquisition time series typically starts with an already pathological scan. This poses problems, as many algorithms are designed to analyze healthy brains and provide no guarantee for images featuring lesions. Examples include, but are not limited to, algorithms for brain anatomy parcellation, tissue segmentation, and brain extraction. To solve this dilemma, we introduce the BraTS inpainting challenge. Here, the participants explore inpainting techniques to synthesize healthy brain scans from lesioned ones. The following manuscript contains the task formulation, dataset, and submission procedure. Later, it will be updated to summarize the findings of the challenge. The challenge is organized as part of the ASNR-BraTS MICCAI challenge.

eess.IV↗

arXiv2024

Model Ensemble for Brain Tumor Segmentation in Magnetic Resonance Imaging

Segmenting brain tumors in multi-parametric magnetic resonance imaging enables performing quantitative analysis in support of clinical trials and personalized patient care. This analysis provides the potential to impact clinical decision-making processes, including diagnosis and prognosis. In 2023, the well-established Brain Tumor Segmentation (BraTS) challenge presented a substantial expansion with eight tasks and 4,500 brain tumor cases. In this paper, we present a deep learning-based ensemble strategy that is evaluated for newly included tumor cases in three tasks: pediatric brain tumors (PED), intracranial meningioma (MEN), and brain metastases (MET). In particular, we ensemble outputs from state-of-the-art nnU-Net and Swin UNETR models on a region-wise basis. Furthermore, we implemented a targeted post-processing strategy based on a cross-validated threshold search to improve the segmentation results for tumor sub-regions. The evaluation of our proposed method on unseen test cases for the three tasks resulted in lesion-wise Dice scores for PED: 0.653, 0.809, 0.826; MEN: 0.876, 0.867, 0.849; and MET: 0.555, 0.6, 0.58; for the enhancing tumor, tumor core, and whole tumor, respectively. Our method was ranked first for PED, third for MEN, and fourth for MET, respectively.

eess.IV↗

arXiv2024

The Brain Tumor Segmentation in Pediatrics (BraTS-PEDs) Challenge: Focus on Pediatrics (CBTN-CONNECT-DIPGR-ASNR-MICCAI BraTS-PEDs)

cs.CV↗

arXiv2024

Patch-Prompt Aligned Bayesian Prompt Tuning for Vision-Language Models

For downstream applications of vision-language pre-trained models, there has been significant interest in constructing effective prompts. Existing works on prompt engineering, which either require laborious manual designs or optimize the prompt tuning as a point estimation problem, may fail to describe diverse characteristics of categories and limit their applications. We introduce a Bayesian probabilistic resolution to prompt tuning, where the label-specific stochastic prompts are generated hierarchically by first sampling a latent vector from an underlying distribution and then employing a lightweight generative model. Importantly, we semantically regularize the tuning process by minimizing the statistical distance between the visual patches and linguistic prompts, which pushes the stochastic label representations to faithfully capture diverse visual concepts, instead of overfitting the training categories. We evaluate the effectiveness of our approach on four tasks: few-shot image recognition, base-to-new generalization, dataset transfer learning, and domain shifts. Extensive results over 15 datasets show promising transferability and generalization performance of our proposed model, both quantitatively and qualitatively.

cs.CV↗

arXiv2024

The Brain Tumor Segmentation (BraTS) Challenge 2023: Focus on Pediatrics (CBTN-CONNECT-DIPGR-ASNR-MICCAI BraTS-PEDs)

Pediatric tumors of the central nervous system are the most common cause of cancer-related death in children. The five-year survival rate for high-grade gliomas in children is less than 20\%. Due to their rarity, the diagnosis of these entities is often delayed, their treatment is mainly based on historic treatment concepts, and clinical trials require multi-institutional collaborations. The MICCAI Brain Tumor Segmentation (BraTS) Challenge is a landmark community benchmark event with a successful history of 12 years of resource creation for the segmentation and analysis of adult glioma. Here we present the CBTN-CONNECT-DIPGR-ASNR-MICCAI BraTS-PEDs 2023 challenge, which represents the first BraTS challenge focused on pediatric brain tumors with data acquired across multiple international consortia dedicated to pediatric neuro-oncology and clinical trials. The BraTS-PEDs 2023 challenge focuses on benchmarking the development of volumentric segmentation algorithms for pediatric brain glioma through standardized quantitative performance evaluation metrics utilized across the BraTS 2023 cluster of challenges. Models gaining knowledge from the BraTS-PEDs multi-parametric structural MRI (mpMRI) training data will be evaluated on separate validation and unseen test mpMRI dataof high-grade pediatric glioma. The CBTN-CONNECT-DIPGR-ASNR-MICCAI BraTS-PEDs 2023 challenge brings together clinicians and AI/imaging scientists to lead to faster development of automated segmentation techniques that could benefit clinical trials, and ultimately the care of children with brain tumors.

eess.IV↗

arXiv2024

Linearly-evolved Transformer for Pan-sharpening

Vision transformer family has dominated the satellite pan-sharpening field driven by the global-wise spatial information modeling mechanism from the core self-attention ingredient. The standard modeling rules within these promising pan-sharpening methods are to roughly stack the transformer variants in a cascaded manner. Despite the remarkable advancement, their success may be at the huge cost of model parameters and FLOPs, thus preventing its application over low-resource satellites.To address this challenge between favorable performance and expensive computation, we tailor an efficient linearly-evolved transformer variant and employ it to construct a lightweight pan-sharpening framework. In detail, we deepen into the popular cascaded transformer modeling with cutting-edge methods and develop the alternative 1-order linearly-evolved transformer variant with the 1-dimensional linear convolution chain to achieve the same function. In this way, our proposed method is capable of benefiting the cascaded modeling rule while achieving favorable performance in the efficient manner. Extensive experiments over multiple satellite datasets suggest that our proposed method achieves competitive performance against other state-of-the-art with fewer computational resources. Further, the consistently favorable performance has been verified over the hyper-spectral image fusion task. Our main focus is to provide an alternative global modeling framework with an efficient structure. The code will be publicly available.

cs.CV↗

arXiv2024

Empirical Study of Named Entity Recognition Performance Using Distribution-aware Word Embedding

With the fast development of Deep Learning techniques, Named Entity Recognition (NER) is becoming more and more important in the information extraction task. The greatest difficulty that the NER task faces is to keep the detectability even when types of NE and documents are unfamiliar. Realizing that the specificity information may contain potential meanings of a word and generate semantic-related features for word embedding, we develop a distribution-aware word embedding and implement three different methods to make use of the distribution information in a NER framework. And the result shows that the performance of NER will be improved if the word specificity is incorporated into existing NER methods.

cs.CL↗

arXiv2024

RotorTM: A Flexible Simulator for Aerial Transportation and Manipulation

Low-cost autonomous Micro Aerial Vehicles (MAVs) have the potential to help humans by simplifying and speeding up complex tasks that require their interaction with the environment, such as construction, package delivery, and search and rescue. These systems, composed of single or multiple vehicles, can be endowed with passive connection mechanisms such as rigid links or cables to perform transportation and manipulation tasks. However, they are inherently complex since they are often underactuated and evolve in nonlinear manifold configuration spaces. In addition, the complexity of systems with cable-suspended load is further increased by the hybrid dynamics depending on the cables' varying tension conditions. This paper presents the first aerial transportation and manipulation simulator incorporating different payloads and passive connection mechanisms with full system dynamics, planning, and control algorithms. Furthermore, it includes a novel general model accounting for the transient hybrid dynamics for aerial systems with cable-suspended load to closely mimic real-world systems. The availability of a flexible and intuitive interface further contributes to its usability and versatility. Comparisons between simulations and real-world experiments with different vehicles' configurations show the fidelity of the simulator results with respect to real-world settings. The experiments also show the simulator's benefit for the rapid prototyping and transitioning of aerial transportation and manipulation systems to real-world deployment.

cs.RO↗