arXiv subjects

Cong Sun

Publications and source records attributed to Cong Sun.

At least 19 recordsLinked to original sources

arXiv2026

New gradient methods with 3 dimensional quadratic termination

A new stepsize for gradient method is proposed. Combining it with the exact line search stepsizes, the gradient method achieves the optimal solution in 5 steps for 3 dimensional quadratic function minimization problem. The new stepsize is plugged in the cyclic stepsize update strategy, and a new gradient method is proposed. By applying the quadratic interpolation for Cauchy approximation, the proposed gradient method is extended to solve general unconstrained problem. With the improved GLL line search, the global convergence of the proposed method is proved. Furthermore, its sublinear convergence rate for convex problems and R-linear convergence rate for problems with quadratic functional growth property are analyzed. Numerical results show that our proposed algorithm enjoys good performances in terms of computational cost, and line search requires very few trial stepsizes.

math.OC↗

arXiv2025

Harnessing Large Language Models for Biomedical Named Entity Recognition

Background and Objective: Biomedical Named Entity Recognition (BioNER) is a foundational task in medical informatics, crucial for downstream applications like drug discovery and clinical trial matching. However, adapting general-domain Large Language Models (LLMs) to this task is often hampered by their lack of domain-specific knowledge and the performance degradation caused by low-quality training data. To address these challenges, we introduce BioSelectTune, a highly efficient, data-centric framework for fine-tuning LLMs that prioritizes data quality over quantity. Methods and Results: BioSelectTune reformulates BioNER as a structured JSON generation task and leverages our novel Hybrid Superfiltering strategy, a weak-to-strong data curation method that uses a homologous weak model to distill a compact, high-impact training dataset. Conclusions: Through extensive experiments, we demonstrate that BioSelectTune achieves state-of-the-art (SOTA) performance across multiple BioNER benchmarks. Notably, our model, trained on only 50% of the curated positive data, not only surpasses the fully-trained baseline but also outperforms powerful domain-specialized models like BioMedBERT.

cs.CL↗

arXiv2025

A Goal-Oriented Approach for Active Object Detection with Exploration-Exploitation Balance

Active object detection, which aims to identify objects of interest through controlled camera movements, plays a pivotal role in real-world visual perception for autonomous robotic applications, such as manufacturing tasks (e.g., assembly operations) performed in unknown environments. A dual control for exploration and exploitation (DCEE) algorithm is presented within goal-oriented control systems to achieve efficient active object detection, leveraging active learning by incorporating variance-based uncertainty estimation in the cost function. This novel method employs an exploration-exploitation balanced cost function to actively guide the selection of the next viewpoint. Specifically, active object detection is achieved through the development of a reward function that encodes knowledge about the confidence variation of objects as a function of viewpoint position within a given domain. By identifying the unknown parameters of this function, the system generates an optimal viewpoint planning strategy. DCEE integrates parameter estimation of the reward function and view planning, ensuring a balanced trade-off between the exploitation of learned knowledge and active exploration during the planning process. Moreover, it demonstrates remarkable adaptability across diverse scenarios, effectively handling LEGO brick detection at varying locations. Importantly, the algorithm maintains consistent configuration settings and a fixed number of parameters across various scenarios, underscoring its efficiency and robustness. To validate the proposed approach, extensive numerical studies, high-fidelity virtual simulations, and real-world experiments under various scenarios were conducted. The results confirm the effectiveness of DCEE in active object detection, showcasing superior performance compared to existing methods, including model predictive control (MPC) and entropy approaches.

eess.SY↗

arXiv2025

Extracting Post-Acute Sequelae of SARS-CoV-2 Infection Symptoms from Clinical Notes via Hybrid Natural Language Processing

Accurately and efficiently diagnosing Post-Acute Sequelae of COVID-19 (PASC) remains challenging due to its myriad symptoms that evolve over long- and variable-time intervals. To address this issue, we developed a hybrid natural language processing pipeline that integrates rule-based named entity recognition with BERT-based assertion detection modules for PASC-symptom extraction and assertion detection from clinical notes. We developed a comprehensive PASC lexicon with clinical specialists. From 11 health systems of the RECOVER initiative network across the U.S., we curated 160 intake progress notes for model development and evaluation, and collected 47,654 progress notes for a population-level prevalence study. We achieved an average F1 score of 0.82 in one-site internal validation and 0.76 in 10-site external validation for assertion detection. Our pipeline processed each note at $2.448\pm 0.812$ seconds on average. Spearman correlation tests showed $\rho >0.83$ for positive mentions and $\rho >0.72$ for negative ones, both with $P <0.0001$. These demonstrate the effectiveness and efficiency of our models and their potential for improving PASC diagnosis.

cs.CL↗

arXiv2025

Disa: Accurate Learning-based Static Disassembly with Attentions

For reverse engineering related security domains, such as vulnerability detection, malware analysis, and binary hardening, disassembly is crucial yet challenging. The fundamental challenge of disassembly is to identify instruction and function boundaries. Classic approaches rely on file-format assumptions and architecture-specific heuristics to guess the boundaries, resulting in incomplete and incorrect disassembly, especially when the binary is obfuscated. Recent advancements of disassembly have demonstrated that deep learning can improve both the accuracy and efficiency of disassembly. In this paper, we propose Disa, a new learning-based disassembly approach that uses the information of superset instructions over the multi-head self-attention to learn the instructions' correlations, thus being able to infer function entry-points and instruction boundaries. Disa can further identify instructions relevant to memory block boundaries to facilitate an advanced block-memory model based value-set analysis for an accurate control flow graph (CFG) generation. Our experiments show that Disa outperforms prior deep-learning disassembly approaches in function entry-point identification, especially achieving 9.1% and 13.2% F1-score improvement on binaries respectively obfuscated by the disassembly desynchronization technique and popular source-level obfuscator. By achieving an 18.5% improvement in the memory block precision, Disa generates more accurate CFGs with a 4.4% reduction in Average Indirect Call Targets (AICT) compared with the state-of-the-art heuristic-based approach.

cs.CR↗

arXiv2025

Global Optimization of Multi-Flyby Trajectories for Multi-Orbital-Plane Constellations Inspection

The rapid expansion of mega-constellations in low Earth orbits has posed significant challenges to space traffic management, necessitating periodic inspections of satellites to ensure the sustainability of the space environment when economically feasible. This study addresses the orbital design challenge associated with inspecting numerous satellites distributed across multiple orbital planes through flybys by proposing an innovative orbital-plane-based inspection strategy. The proposed methodology reformulates the multi-satellite flyby problem into a multi-rendezvous trajectory planning problem by proposing an analytical approach to determine a maneuver-free inspection orbit that enables flyby of all satellites within a specific orbital plane. Additionally, a three-layer global optimization framework is developed to tackle this problem. The first layer establishes an approximate cost evaluation model for orbital plane visitation sequences, utilizing a genetic algorithm to identify the optimal sequence from a vast array of candidate planes, thereby maximizing inspection targets while minimizing fuel consumption. The second layer constructs a mixed-integer programming model to locally refine the rendezvous epochs and orbital parameters of each inspection orbit to reduce the total velocity increment. The third layer accurately computes the optimal impulsive maneuvers and trajectories between inspection orbits. In contrast to traditional low-Earth orbit rendezvous optimization frameworks, the proposed framework fully leverages the adjustable freedom in inclination and right ascension of the ascending node (RAAN) of inspection orbits, significantly reducing the total velocity increment. Simulation results demonstrate that the proposed method can effectively address the trajectory optimization problem associated with constellation inspection for tens of thousands of satellites.

eess.SY↗

arXiv2025

VIMU: Effective Physics-based Realtime Detection and Recovery against Stealthy Attacks on UAVs

Sensor attacks on robotic vehicles have become pervasive and manipulative. Their latest advancements exploit sensor and detector characteristics to bypass detection. Recent security efforts have leveraged the physics-based model to detect or mitigate sensor attacks. However, these approaches are only resilient to a few sensor attacks and still need improvement in detection effectiveness. We present VIMU, an efficient sensor attack detection and resilience system for unmanned aerial vehicles. We propose a detection algorithm, CS-EMA, that leverages low-pass filtering to identify stealthy gyroscope attacks while achieving an overall effective sensor attack detection. We develop a fine-grained nonlinear physical model with precise aerodynamic and propulsion wrench modeling. We also augment the state estimation with a FIFO buffer safeguard to mitigate the impact of high-rate IMU attacks. The proposed physical model and buffer safeguard provide an effective system state recovery toward maintaining flight stability. We implement VIMU on PX4 autopilot. The evaluation results demonstrate the effectiveness of VIMU in detecting and mitigating various realistic sensor attacks, especially stealthy attacks.

cs.CR↗

arXiv2025

Generative Large Language Models Trained for Detecting Errors in Radiology Reports

In this retrospective study, a dataset was constructed with two parts. The first part included 1,656 synthetic chest radiology reports generated by GPT-4 using specified prompts, with 828 being error-free synthetic reports and 828 containing errors. The second part included 614 reports: 307 error-free reports between 2011 and 2016 from the MIMIC-CXR database and 307 corresponding synthetic reports with errors generated by GPT-4 on the basis of these MIMIC-CXR reports and specified prompts. All errors were categorized into four types: negation, left/right, interval change, and transcription errors. Then, several models, including Llama-3, GPT-4, and BiomedBERT, were refined using zero-shot prompting, few-shot prompting, or fine-tuning strategies. Finally, the performance of these models was evaluated using the F1 score, 95\% confidence interval (CI) and paired-sample t-tests on our constructed dataset, with the prediction results further assessed by radiologists. Using zero-shot prompting, the fine-tuned Llama-3-70B-Instruct model achieved the best performance with the following F1 scores: 0.769 for negation errors, 0.772 for left/right errors, 0.750 for interval change errors, 0.828 for transcription errors, and 0.780 overall. In the real-world evaluation phase, two radiologists reviewed 200 randomly selected reports output by the model. Of these, 99 were confirmed to contain errors detected by the models by both radiologists, and 163 were confirmed to contain model-detected errors by at least one radiologist. Generative LLMs, fine-tuned on synthetic and MIMIC-CXR radiology reports, greatly enhanced error detection in radiology reports.

cs.CL↗

arXiv2024

AtlasSeg: Atlas Prior Guided Dual-U-Net for Cortical Segmentation in Fetal Brain MRI

Accurate automatic tissue segmentation in fetal brain MRI is a crucial step in clinical diagnosis but remains challenging, particularly due to the dynamically changing anatomy and tissue contrast during fetal development. Existing segmentation networks can only implicitly learn age-related features, leading to a decline in accuracy at extreme early or late gestational ages (GAs). To improve segmentation performance throughout gestation, we introduce AtlasSeg, a dual-U-shape convolution network that explicitly integrates GA-specific information as guidance. By providing a publicly available fetal brain atlas with segmentation labels corresponding to relevant GAs, AtlasSeg effectively extracts age-specific patterns in the atlas branch and generates precise tissue segmentation in the segmentation branch. Multi-scale spatial attention feature fusions are constructed during both encoding and decoding stages to enhance feature flow and facilitate better information interactions between two branches. We compared AtlasSeg with six well-established networks in a seven-tissue segmentation task, achieving the highest average Dice similarity coefficient of 0.91. The improvement was particularly evident in extreme early or late GA cases, where training data was scare. Furthermore, AtlasSeg exhibited minimal performance degradation on low-quality images with contrast changes and noise, attributed to its anatomical shape priors. Overall, AtlasSeg demonstrated enhanced segmentation accuracy, better consistency across fetal ages, and robustness to perturbations, making it a powerful tool for reliable fetal brain MRI tissue segmentation, particularly suited for diagnostic assessments during early gestation.

eess.IV↗

arXiv2024

A Framework for Human Evaluation of Large Language Models in Healthcare Derived from Literature Review

With generative artificial intelligence (AI), particularly large language models (LLMs), continuing to make inroads in healthcare, it is critical to supplement traditional automated evaluations with human evaluations. Understanding and evaluating the output of LLMs is essential to assuring safety, reliability, and effectiveness. However, human evaluation's cumbersome, time-consuming, and non-standardized nature presents significant obstacles to comprehensive evaluation and widespread adoption of LLMs in practice. This study reviews existing literature on human evaluation methodologies for LLMs in healthcare. We highlight a notable need for a standardized and consistent human evaluation approach. Our extensive literature search, adhering to the Preferred Reporting Items for Systematic Reviews and Meta-Analyses (PRISMA) guidelines, includes publications from January 2018 to February 2024. The review examines the human evaluation of LLMs across various medical specialties, addressing factors such as evaluation dimensions, sample types and sizes, selection, and recruitment of evaluators, frameworks and metrics, evaluation process, and statistical analysis type. Drawing on the diverse evaluation strategies employed in these studies, we propose a comprehensive and practical framework for human evaluation of LLMs: QUEST: Quality of Information, Understanding and Reasoning, Expression Style and Persona, Safety and Harm, and Trust and Confidence. This framework aims to improve the reliability, generalizability, and applicability of human evaluation of LLMs in different healthcare applications by defining clear evaluation dimensions and offering detailed guidelines.

cs.CL↗

arXiv2024

Deep learning with noisy labels in medical prediction problems: a scoping review

Objectives: Medical research faces substantial challenges from noisy labels attributed to factors like inter-expert variability and machine-extracted labels. Despite this, the adoption of label noise management remains limited, and label noise is largely ignored. To this end, there is a critical need to conduct a scoping review focusing on the problem space. This scoping review aims to comprehensively review label noise management in deep learning-based medical prediction problems, which includes label noise detection, label noise handling, and evaluation. Research involving label uncertainty is also included. Methods: Our scoping review follows the Preferred Reporting Items for Systematic Reviews and Meta-Analyses (PRISMA) guidelines. We searched 4 databases, including PubMed, IEEE Xplore, Google Scholar, and Semantic Scholar. Our search terms include "noisy label AND medical / healthcare / clinical", "un-certainty AND medical / healthcare / clinical", and "noise AND medical / healthcare / clinical". Results: A total of 60 papers met inclusion criteria between 2016 and 2023. A series of practical questions in medical research are investigated. These include the sources of label noise, the impact of label noise, the detection of label noise, label noise handling techniques, and their evaluation. Categorization of both label noise detection methods and handling techniques are provided. Discussion: From a methodological perspective, we observe that the medical community has been up to date with the broader deep-learning community, given that most techniques have been evaluated on medical data. We recommend considering label noise as a standard element in medical research, even if it is not dedicated to handling noisy labels. Initial experiments can start with easy-to-implement methods, such as noise-robust loss functions, weighting, and curriculum learning.

cs.LG↗

arXiv2024

CafkNet: GNN-Empowered Forward Kinematic Modeling for Cable-Driven Parallel Robots

Cable-driven parallel robots (CDPRs) have gained significant attention due to their promising advantages. When deploying CDPRs in practice, the kinematic modeling is a key question. Unlike serial robots, CDPRs have a simple inverse kinematics problem but a complex forward kinematics (FK) issue. So, the development of accurate and efficient FK solvers has been a prominent research focus in CDPR applications. By observing the topology within CDPRs, in this paper, we propose a graph-based representation to model CDPRs and introduce CafkNet, a fast and general FK solving method, leveraging Graph Neural Network (GNN) to learn the topological structure and yield the real FK solutions with superior generality, high accuracy, and low time cost. CafkNet is extensively tested on 3D and 2D CDPRs in different configurations, both in simulators and real scenarios. The results demonstrate its ability to learn CDPRs' internal topology and accurately solve the FK problem. Then, the zero-shot generalization from one configuration to another is validated. Also, the sim2real gap can be bridged by CafkNet using both simulation and real-world data. To the best of our knowledge, it is the first study that employs the GNN to solve the FK problem for CDPRs.

cs.RO↗

arXiv2023

Demonstration-based learning for few-shot biomedical named entity recognition under machine reading comprehension

Although deep learning techniques have shown significant achievements, they frequently depend on extensive amounts of hand-labeled data and tend to perform inadequately in few-shot scenarios. The objective of this study is to devise a strategy that can improve the model's capability to recognize biomedical entities in scenarios of few-shot learning. By redefining biomedical named entity recognition (BioNER) as a machine reading comprehension (MRC) problem, we propose a demonstration-based learning method to address few-shot BioNER, which involves constructing appropriate task demonstrations. In assessing our proposed method, we compared the proposed method with existing advanced methods using six benchmark datasets, including BC4CHEMD, BC5CDR-Chemical, BC5CDR-Disease, NCBI-Disease, BC2GM, and JNLPBA. We examined the models' efficacy by reporting F1 scores from both the 25-shot and 50-shot learning experiments. In 25-shot learning, we observed 1.1% improvements in the average F1 scores compared to the baseline method, reaching 61.7%, 84.1%, 69.1%, 70.1%, 50.6%, and 59.9% on six datasets, respectively. In 50-shot learning, we further improved the average F1 scores by 1.0% compared to the baseline method, reaching 73.1%, 86.8%, 76.1%, 75.6%, 61.7%, and 65.4%, respectively. We reported that in the realm of few-shot learning BioNER, MRC-based language models are much more proficient in recognizing biomedical entities compared to the sequence labeling approach. Furthermore, our MRC-language models can compete successfully with fully-supervised learning methodologies that rely heavily on the availability of abundant annotated data. These results highlight possible pathways for future advancements in few-shot BioNER methodologies.

cs.CL↗

arXiv2023

A Motion Assessment Method for Reference Stack Selection in Fetal Brain MRI Reconstruction Based on Tensor Rank Approximation

Purpose: Slice-to-volume registration and super-resolution reconstruction (SVR-SRR) is commonly used to generate 3D volumes of the fetal brain from 2D stacks of slices acquired in multiple orientations. A critical initial step in this pipeline is to select one stack with the minimum motion as a reference for registration. An accurate and unbiased motion assessment (MA) is thus crucial for successful selection. Methods: We presented a MA method that determines the minimum motion stack based on 3D low-rank approximation using CANDECOMP/PARAFAC (CP) decomposition. Compared to the current 2D singular value decomposition (SVD) based method that requires flattening stacks into matrices to obtain ranks, in which the spatial information is lost, the CP-based method can factorize 3D stack into low-rank and sparse components in a computationally efficient manner. The difference between the original stack and its low-rank approximation was proposed as the motion indicator. Results: Compared to SVD-based methods, our proposed CP-based MA demonstrated higher sensitivity in detecting small motion with a lower baseline bias. Experiments on randomly simulated motion illustrated that the proposed CP method achieved a higher success rate of 95.45% in identifying the minimum motion stack, compared to SVD-based method with a success rate of 58.18%. We further demonstrated that combining CP-based MA with existing SRR-SVR pipeline significantly improved 3D volume reconstruction. Conclusion: The proposed CP-based MA method showed superior performance compared to SVD-based methods with higher sensitivity to motion, success rate, and lower baseline bias, and can be used as a prior step to improve fetal brain reconstruction.

eess.IV↗

arXiv2022

A microstructure estimation Transformer inspired by sparse representation for diffusion MRI

Diffusion magnetic resonance imaging (dMRI) is an important tool in characterizing tissue microstructure based on biophysical models, which are complex and highly non-linear. Resolving microstructures with optimization techniques is prone to estimation errors and requires dense sampling in the q-space. Deep learning based approaches have been proposed to overcome these limitations. Motivated by the superior performance of the Transformer, in this work, we present a learning-based framework based on Transformer, namely, a Microstructure Estimation Transformer with Sparse Coding (METSC) for dMRI-based microstructure estimation with downsampled q-space data. To take advantage of the Transformer while addressing its limitation in large training data requirements, we explicitly introduce an inductive bias - model bias into the Transformer using a sparse coding technique to facilitate the training process. Thus, the METSC is composed with three stages, an embedding stage, a sparse representation stage, and a mapping stage. The embedding stage is a Transformer-based structure that encodes the signal to ensure the voxel is represented effectively. In the sparse representation stage, a dictionary is constructed by solving a sparse reconstruction problem that unfolds the Iterative Hard Thresholding (IHT) process. The mapping stage is essentially a decoder that computes the microstructural parameters from the output of the second stage, based on the weighted sum of normalized dictionary coefficients where the weights are also learned. We tested our framework on two dMRI models with downsampled q-space data, including the intravoxel incoherent motion (IVIM) model and the neurite orientation dispersion and density imaging (NODDI) model. The proposed method achieved up to 11.25 folds of acceleration in scan time and outperformed the other state-of-the-art learning-based methods.

eess.SP↗

arXiv2022

AFFIRM: Affinity Fusion-based Framework for Iteratively Random Motion correction of multi-slice fetal brain MRI

Multi-slice magnetic resonance images of the fetal brain are usually contaminated by severe and arbitrary fetal and maternal motion. Hence, stable and robust motion correction is necessary to reconstruct high-resolution 3D fetal brain volume for clinical diagnosis and quantitative analysis. However, the conventional registration-based correction has a limited capture range and is insufficient for detecting relatively large motions. Here, we present a novel Affinity Fusion-based Framework for Iteratively Random Motion (AFFIRM) correction of the multi-slice fetal brain MRI. It learns the sequential motion from multiple stacks of slices and integrates the features between 2D slices and reconstructed 3D volume using affinity fusion, which resembles the iterations between slice-to-volume registration and volumetric reconstruction in the regular pipeline. The method accurately estimates the motion regardless of brain orientations and outperforms other state-of-the-art learning-based methods on the simulated motion-corrupted data, with a 48.4% reduction of mean absolute error for rotation and 61.3% for displacement. We then incorporated AFFIRM into the multi-resolution slice-to-volume registration and tested it on the real-world fetal MRI scans at different gestation stages. The results indicated that adding AFFIRM to the conventional pipeline improved the success rate of fetal brain super-resolution reconstruction from 77.2% to 91.9%.

eess.IV↗

arXiv2022

Resource allocation for reconfigurable intelligent surface aided broadcast channels

A two-user downlink network aided by a reconfigurable intelligent surface is considered. The weighted sum signal to interference plus noise ratio maximization and the sum rate maximization models are presented, where the precoding vectors and the RIS matrix are jointly optimized. Since the optimization problem is non-convex and difficult, new approximation models are proposed. The upper bounds of the corresponding objective functions are derived and maximized. Two new algorithms based on the alternating direction method of multiplier are proposed. It is proved that the proposed algorithms converge to the KKT points of the approximation models as long as the iteration points converge. Simulation results show the good performances of the proposed models compared to state of the art algorithms.

eess.SP↗

arXiv2022

DeepCatra: Learning Flow- and Graph-based Behaviors for Android Malware Detection

As Android malware is growing and evolving, deep learning has been introduced into malware detection, resulting in great effectiveness. Recent work is considering hybrid models and multi-view learning. However, they use only simple features, limiting the accuracy of these approaches in practice. In this paper, we propose DeepCatra, a multi-view learning approach for Android malware detection, whose model consists of a bidirectional LSTM (BiLSTM) and a graph neural network (GNN) as subnets. The two subnets rely on features extracted from statically computed call traces leading to critical APIs derived from public vulnerabilities. For each Android app, DeepCatra first constructs its call graph and computes call traces reaching critical APIs. Then, temporal opcode features used by the BiLSTM subnet are extracted from the call traces, while flow graph features used by the GNN subnet are constructed from all the call traces and inter-component communications. We evaluate the effectiveness of DeepCatra by comparing it with several state-of-the-art detection approaches. Experimental results on over 18,000 real-world apps and prevalent malware show that DeepCatra achieves considerable improvement, e.g., 2.7% to 14.6% on F1-measure, which demonstrates the feasibility of DeepCatra in practice.

cs.CR↗