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HistoART: Histopathology Artifact Detection and Reporting Tool

arXiv.org Artificial Intelligence

In modern cancer diagnostics, Whole Slide Imaging (WSI) is widely used to digitize tissue specimens for detailed, high-resolution examination; however, other diagnostic approaches, such as liquid biopsy and molecular testing, are also utilized based on the cancer type and clinical context. While WSI has revolutionized digital histopathology by enabling automated, precise analysis, it remains vulnerable to artifacts introduced during slide preparation and scanning. These artifacts can compromise downstream image analysis. To address this challenge, we propose and compare three robust artifact detection approaches for WSIs: (1) a foundation model-based approach (FMA) using a fine-tuned Unified Neural Image (UNI) architecture, (2) a deep learning approach (DLA) built on a ResNet50 backbone, and (3) a knowledge-based approach (KBA) leveraging handcrafted features from texture, color, and frequency-based metrics. The methods target six common artifact types: tissue folds, out-of-focus regions, air bubbles, tissue damage, marker traces, and blood contamination. Evaluations were conducted on 50,000+ image patches from diverse scanners (Hamamatsu, Philips, Leica Aperio AT2) across multiple sites. The FMA achieved the highest patch-wise AUROC of 0.995 (95% CI [0.994, 0.995]), outperforming the ResNet50-based method (AUROC: 0.977, 95% CI [0.977, 0.978]) and the KBA (AUROC: 0.940, 95% CI [0.933, 0.946]). To translate detection into actionable insights, we developed a quality report scorecard that quantifies high-quality patches and visualizes artifact distributions.


Safe Low Bandwidth SPV: A Formal Treatment of Simplified Payment Verification Protocols and Security Bounds

arXiv.org Artificial Intelligence

The verification of transactions in blockchain networks presents a bifurcation in protocol implementation: one pathway aligns with complete state replication through full nodes, while the alternative, as outlined in Nakamoto's seminal whitepaper [1], advocates simplified payment verification (SPV) wherein clients validate transactions via header-only proofs. This paper formalises and mathematically models the latter, extending it beyond its conceptual origin into a fully specified, implementable, and security-provable protocol. In doing so, we consolidate foundational concepts from the original whitepaper, correct widespread misinterpretations, and construct a complete formal model using automata theory, game-theoretic reasoning, and complexity-theoretic metrics. This treatise employs a layered structure: beginning with an exegesis of the SPV concept as it appears in the original protocol specification, we examine the trajectory of mis-implementations, diverging threat models, and false economic assumptions. Subsequent sections provide a rigorous formalisation of SPV in a low-bandwidth adversarial context. This includes the introduction of protocol optimisations that conform to the Bitcoin protocol as defined in 2008, with proofs grounded in computational and information-theoretic primitives. Later sections analyse game-theoretic cost models for misbehaviour, followed by a discussion of implementation artefacts and evaluation in simulated hostile environments. The final structure includes appendices detailing code listings, mathematical proofs, and graphical models that substantiate the proposed design.


Automated anatomy-based post-processing reduces false positives and improved interpretability of deep learning intracranial aneurysm detection

arXiv.org Artificial Intelligence

Introduction: Deep learning (DL) models can help detect intracranial aneurysms on CTA, but high false positive (FP) rates remain a barrier to clinical translation, despite improvement in model architectures and strategies like detection threshold tuning. We employed an automated, anatomy-based, heuristic-learning hybrid artery-vein segmentation post-processing method to further reduce FPs. Methods: Two DL models, CPM-Net and a deformable 3D convolutional neural network-transformer hybrid (3D-CNN-TR), were trained with 1,186 open-source CTAs (1,373 annotated aneurysms), and evaluated with 143 held-out private CTAs (218 annotated aneurysms). Brain, artery, vein, and cavernous venous sinus (CVS) segmentation masks were applied to remove possible FPs in the DL outputs that overlapped with: (1) brain mask; (2) vein mask; (3) vein more than artery masks; (4) brain plus vein mask; (5) brain plus vein more than artery masks. Results: CPM-Net yielded 139 true-positives (TP); 79 false-negative (FN); 126 FP. 3D-CNN-TR yielded 179 TP; 39 FN; 182 FP. FPs were commonly extracranial (CPM-Net 27.3%; 3D-CNN-TR 42.3%), venous (CPM-Net 56.3%; 3D-CNN-TR 29.1%), arterial (CPM-Net 11.9%; 3D-CNN-TR 53.3%), and non-vascular (CPM-Net 25.4%; 3D-CNN-TR 9.3%) structures. Method 5 performed best, reducing CPM-Net FP by 70.6% (89/126) and 3D-CNN-TR FP by 51.6% (94/182), without reducing TP, lowering the FP/case rate from 0.88 to 0.26 for CPM-NET, and from 1.27 to 0.62 for the 3D-CNN-TR. Conclusion: Anatomy-based, interpretable post-processing can improve DL-based aneurysm detection model performance. More broadly, automated, domain-informed, hybrid heuristic-learning processing holds promise for improving the performance and clinical acceptance of aneurysm detection models.


Aleatoric and Epistemic Uncertainty Measures for Ordinal Classification through Binary Reduction

arXiv.org Artificial Intelligence

Ordinal classification problems, where labels exhibit a natural order, are prevalent in high-stakes fields such as medicine and finance. Accurate uncertainty quantification, including the decomposition into aleatoric (inherent variability) and epistemic (lack of knowledge) components, is crucial for reliable decision-making. However, existing research has primarily focused on nominal classification and regression. In this paper, we introduce a novel class of measures of aleatoric and epistemic uncertainty in ordinal classification, which is based on a suitable reduction to (entropy- and variance-based) measures for the binary case. These measures effectively capture the trade-off in ordinal classification between exact hit-rate and minimial error distances. We demonstrate the effectiveness of our approach on various tabular ordinal benchmark datasets using ensembles of gradient-boosted trees and multi-layer perceptrons for approximate Bayesian inference. Our method significantly outperforms standard and label-wise entropy and variance-based measures in error detection, as indicated by misclassification rates and mean absolute error. Additionally, the ordinal measures show competitive performance in out-of-distribution (OOD) detection. Our findings highlight the importance of considering the ordinal nature of classification problems when assessing uncertainty.


A Probabilistic Approach to Wildfire Spread Prediction Using a Denoising Diffusion Surrogate Model

arXiv.org Artificial Intelligence

We propose a stochastic framework for wildfire spread prediction using deep generative diffusion models with ensemble sampling. In contrast to traditional deterministic approaches that struggle to capture the inherent uncertainty and variability of wildfire dynamics, our method generates probabilistic forecasts by sampling multiple plausible future scenarios conditioned on the same initial state. As a proof-of-concept, the model is trained on synthetic wildfire data generated by a probabilistic cellular automata-based simulator, which integrates realistic environmental features such as canopy cover, vegetation density, and terrain slope, and is grounded in historical fire events including the Chimney and Ferguson fires. To assess predictive performance and uncertainty modelling, we compare two surrogate models with identical network architecture: one trained via conventional supervised regression, and the other using a conditional diffusion framework with ensemble sampling. In the diffusion-based emulator, multiple inference passes are performed for the same input state by resampling the initial latent variable, allowing the model to capture a distribution of possible outcomes.


Few-shot Classification as Multi-instance Verification: Effective Backbone-agnostic Transfer across Domains

arXiv.org Artificial Intelligence

We investigate cross-domain few-shot learning under the constraint that fine-tuning of backbones (i.e., feature extractors) is impossible or infeasible -- a scenario that is increasingly common in practical use cases. Handling the low-quality and static embeddings produced by frozen, "black-box" backbones leads to a problem representation of few-shot classification as a series of multiple instance verification (MIV) tasks. Inspired by this representation, we introduce a novel approach to few-shot domain adaptation, named the "MIV-head", akin to a classification head that is agnostic to any pretrained backbone and computationally efficient. The core components designed for the MIV-head, when trained on few-shot data from a target domain, collectively yield strong performance on test data from that domain. Importantly, it does so without fine-tuning the backbone, and within the "meta-testing" phase. Experimenting under various settings and on an extension of the Meta-dataset benchmark for cross-domain few-shot image classification, using representative off-the-shelf convolutional neural network and vision transformer backbones pretrained on ImageNet1K, we show that the MIV-head achieves highly competitive accuracy when compared to state-of-the-art "adapter" (or partially fine-tuning) methods applied to the same backbones, while incurring substantially lower adaptation cost. We also find well-known "classification head" approaches lag far behind in terms of accuracy. Ablation study empirically justifies the core components of our approach. We share our code at https://github.com/xxweka/MIV-head.


Unleashing Diffusion and State Space Models for Medical Image Segmentation

arXiv.org Artificial Intelligence

Existing segmentation models trained on a single medical imaging dataset often lack robustness when encountering unseen organs or tumors. Developing a robust model capable of identifying rare or novel tumor categories not present during training is crucial for advancing medical imaging applications. We propose DSM, a novel framework that leverages diffusion and state space models to segment unseen tumor categories beyond the training data. DSM utilizes two sets of object queries trained within modified attention decoders to enhance classification accuracy. Initially, the model learns organ queries using an object-aware feature grouping strategy to capture organ-level visual features. It then refines tumor queries by focusing on diffusion-based visual prompts, enabling precise segmentation of previously unseen tumors. Furthermore, we incorporate diffusion-guided feature fusion to improve semantic segmentation performance. By integrating CLIP text embeddings, DSM captures category-sensitive classes to improve linguistic transfer knowledge, thereby enhancing the model's robustness across diverse scenarios and multi-label tasks. Extensive experiments demonstrate the superior performance of DSM in various tumor segmentation tasks. Code is available at https://github.com/Rows21/k-Means_Mask_Mamba.


Deep learning-based segmentation of T1 and T2 cardiac MRI maps for automated disease detection

arXiv.org Artificial Intelligence

Objectives Parametric tissue mapping enables quantitative cardiac tissue characterization but is limited by inter-observer variability during manual delineation. Traditional approaches relying on average relaxation values and single cutoffs may oversimplify myocardial complexity. This study evaluates whether deep learning (DL) can achieve segmentation accuracy comparable to inter-observer variability, explores the utility of statistical features beyond mean T1/T2 values, and assesses whether machine learning (ML) combining multiple features enhances disease detection. Materials & Methods T1 and T2 maps were manually segmented. The test subset was independently annotated by two observers, and inter-observer variability was assessed. A DL model was trained to segment left ventricle blood pool and myocardium. Average (A), lower quartile (LQ), median (M), and upper quartile (UQ) were computed for the myocardial pixels and employed in classification by applying cutoffs or in ML. Dice similarity coefficient (DICE) and mean absolute percentage error evaluated segmentation performance. Bland-Altman plots assessed inter-user and model-observer agreement. Receiver operating characteristic analysis determined optimal cutoffs. Pearson correlation compared features from model and manual segmentations. F1-score, precision, and recall evaluated classification performance. Wilcoxon test assessed differences between classification methods, with p < 0.05 considered statistically significant. Results 144 subjects were split into training (100), validation (15) and evaluation (29) subsets. Segmentation model achieved a DICE of 85.4%, surpassing inter-observer agreement. Random forest applied to all features increased F1-score (92.7%, p < 0.001). Conclusion DL facilitates segmentation of T1/ T2 maps. Combining multiple features with ML improves disease detection.


An efficient plant disease detection using transfer learning approach

arXiv.org Artificial Intelligence

Plant diseases pose significant challenges to farmers and the agricultural sector at large. However, early detection of plant diseases is crucial to mitigating their effects and preventing widespread damage, as outbreaks can severely impact the productivity and quality of crops. With advancements in technology, there are increasing opportunities for automating the monitoring and detection of disease outbreaks in plants. This study proposed a system designed to identify and monitor plant diseases using a transfer learning approach. Specifically, the study utilizes YOLOv7 and YOLOv8, two state-ofthe-art models in the field of object detection. By fine-tuning these models on a dataset of plant leaf images, the system is able to accurately detect the presence of Bacteria, Fungi and Viral diseases such as Powdery Mildew, Angular Leaf Spot, Early blight and Tomato mosaic virus. The model's performance was evaluated using several metrics, including mean Average Precision (mAP), F1-score, Precision, and Recall, yielding values of 91.05, 89.40, 91.22, and 87.66, respectively. The result demonstrates the superior effectiveness and efficiency of YOLOv8 compared to other object detection methods, highlighting its potential for use in modern agricultural practices. The approach provides a scalable, automated solution for early any plant disease detection, contributing to enhanced crop yield, reduced reliance on manual monitoring, and supporting sustainable agricultural practices.


AIMatDesign: Knowledge-Augmented Reinforcement Learning for Inverse Materials Design under Data Scarcity

arXiv.org Artificial Intelligence

With the growing demand for novel materials, machine learning-driven inverse design methods face significant challenges in reconciling the high-dimensional materials composition space with limited experimental data. Existing approaches suffer from two major limitations: (I) machine learning models often lack reliability in high-dimensional spaces, leading to prediction biases during the design process; (II) these models fail to effectively incorporate domain expert knowledge, limiting their capacity to support knowledge-guided inverse design. To address these challenges, we introduce AIMatDesign, a reinforcement learning framework that addresses these limitations by augmenting experimental data using difference-based algorithms to build a trusted experience pool, accelerating model convergence. To enhance model reliability, an automated refinement strategy guided by large language models (LLMs) dynamically corrects prediction inconsistencies, reinforcing alignment between reward signals and state value functions. Additionally, a knowledge-based reward function leverages expert domain rules to improve stability and efficiency during training. Our experiments demonstrate that AIMatDesign significantly surpasses traditional machine learning and reinforcement learning methods in discovery efficiency, convergence speed, and success rates. Among the numerous candidates proposed by AIMatDesign, experimental synthesis of representative Zr-based alloys yielded a top-performing BMG with 1.7GPa yield strength and 10.2\% elongation, closely matching predictions. Moreover, the framework accurately captured the trend of yield strength variation with composition, demonstrating its reliability and potential for closed-loop materials discovery.