Histopathology tissue samples are widely available in two states: paraffin-embedded unstained and non-paraffin-embedded stained whole slide RGB images (WSRI). Hematoxylin and eosin stain (H&E) is one of the principal stains in histology but suffers from several shortcomings related to tissue preparation, staining proto…
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48 results for “histological whole slide image”
Deep learning model diagnoses celiac disease severity from intestinal biopsy images.
problem Diagnosing celiac disease severity from biopsy images, especially mild cases.
method Deep residual networks trained on a modified Marsh score histological scoring system.
result Model achieved AUC > 0.96 in all classes for CD severity classification.
Dropout improves MIL performance on noisy WSI classification.
problem Noisy feature embeddings and weak supervision in MIL for WSI classification.
method Empirical exploration of dropout in MIL, proposing MIL-Dropout.
result MIL-Dropout boosts MIL performance with minimal computational cost.
Study uses deep learning to detect BCCs in high-res histopathological images.
problem Detecting BCCs in high-resolution, weakly labeled histopathological images.
method Attention-based deep learning models to process ultra-high resolution images with weak labels.
result Attention-based models achieve almost perfect classification performance (AUC of 0.99).
Neural networks promise to bring robust, quantitative analysis to medical fields, but adoption is limited by the technicalities of training these networks. To address this translation gap between medical researchers and neural networks in the field of pathology, we have created an intuitive interface which utilizes the…
Automated Prostate Cancer Diagnosis Based on Gleason Grading Using Convolutional Neural Networkeess.IV
CNN-based prostate cancer grading improves accuracy and efficiency.
problem Manual Gleason grading by pathologists is time-consuming and prone to errors.
method Patch-Based Image Reconstruction (PBIR), Distribution Correction (DC), Quadratic Weighted Mean Square Error (QWMSE).
result Achieved superior expert-level performance (0.8885 quadratic-weighted kappa coefficient).
This paper benchmarks OoDD methods for medical imaging.
problem Medical models trained for one domain may fail on images from a different domain.
method Defined 3 categories of OoD examples and benchmarked methods in 3 medical imaging domains.
result Simple binary classifier on feature representation yields best accuracy and AUPRC.
Novel framework for whole-slide blood cell segmentation.
problem Semantic segmentation of whole-slide blood cell images.
method Convolutional encoder-decoder framework with VGG-16 feature extraction.
result Outstanding accuracy (97.18% global accuracy) in classwise segmentation.
We present a novel approach to train pixel resolution segmentation models on whole slide images in a weakly supervised setup. The model is trained to classify patches extracted from slides. This leads the training to be made under noisy labeled data. We solve the problem with two complementary strategies. First, the pa…
Recent studies have shown promising results in using Deep Learning to detect malignancy in whole slide imaging. However, they were limited to just predicting positive or negative finding for a specific neoplasm. We attempted to use Deep Learning with a convolutional neural network algorithm to build a lymphoma diagnost…
Digital histology images are amenable to the application of convolutional neural network (CNN) for analysis due to the sheer size of pixel data present in them. CNNs are generally used for representation learning from small image patches (e.g. 224x224) extracted from digital histology images due to computational and me…
Towards Unsupervised Cancer Subtyping: Predicting Prognosis Using A Histologic Visual Dictionarycs.CV
Unlike common cancers, such as those of the prostate and breast, tumor grading in rare cancers is difficult and largely undefined because of small sample sizes, the sheer volume of time needed to undertake on such a task, and the inherent difficulty of extracting human-observed patterns. One of the most challenging exa…
Diffusion Generative Modeling for Spatially Resolved Gene Expression Inference from Histology Imagescs.CV
Stem uses diffusion models to infer gene expression from H&E images.
problem Inference of gene expression from H&E stained images is time-consuming and expensive.
method Conditional diffusion generative model to infer gene expression.
result Stem achieves state-of-the-art performance in spatial gene expression prediction.
Monte-Carlo Sampling applied to Multiple Instance Learning for Histological Image Classificationcs.CV
We propose a patch sampling strategy based on a sequential Monte-Carlo method for high resolution image classification in the context of Multiple Instance Learning. When compared with grid sampling and uniform sampling techniques, it achieves higher generalization performance. We validate the strategy on two artificial…
An important part of Digital Pathology is the analysis of multiple digitised whole slide images from differently stained tissue sections. It is common practice to mount consecutive sections containing corresponding microscopic structures on glass slides, and to stain them differently to highlight specific tissue compon…
Semi-supervised learning chain boosts histology image accuracy with minimal labeled data.
problem Expensive annotation of large histology image databases.
method Teacher-student knowledge distillation chain approach.
result Accuracy matches 100% labeled data with only 0.5% labeled data.
In recent years, many publications showed that convolutional neural network based features can have a superior performance to engineered features. However, not much effort was taken so far to extract local features efficiently for a whole image. In this paper, we present an approach to compute patch-based local feature…
Automatization of the diagnosis of any kind of disease is of great importance and it's gaining speed as more and more deep learning solutions are applied to different problems. One of such computer aided systems could be a decision support too able to accurately differentiate between different types of breast cancer hi…
Efficient and precise classification of histological cell nuclei is of utmost importance due to its potential applications in the field of medical image analysis. It would facilitate the medical practitioners to better understand and explore various factors for cancer treatment. The classification of histological cell …
Deep neural networks have introduced significant advancements in the field of machine learning-based analysis of digital pathology images including prostate tissue images. With the help of transfer learning, classification and segmentation performance of neural network models have been further increased. However, due t…
Spectral decoupling improves neural network generalization in medical imaging.
problem Poor generalization of neural networks trained on medical imaging data.
method Spectral decoupling, a regularization technique that encourages learning more features.
result Spectral decoupling increases network robustness and performance on external datasets.
Analysis of histopathology slides is a critical step for many diagnoses, and in particular in oncology where it defines the gold standard. In the case of digital histopathological analysis, highly trained pathologists must review vast whole-slide-images of extreme digital resolution ( pixels) across multiple…
EAGLE-Net enhances foundation models by integrating patch-level features for better tissue understanding.
problem Foundation models lack mechanisms for global tissue structure and local context in computational pathology.
method EAGLE-Net combines multi-scale spatial encoding, attention-guided loss functions, and background suppression to aggregate patch-level features into slide-level predictions.
result EAGLE-Net improves classification accuracy and concordance indices across multiple cancer types, producing biologically coherent attention maps.
Colon Cancer is one of the most common types of cancer. The treatment is planned to depend on the grade or stage of cancer. One of the preconditions for grading of colon cancer is to segment the glandular structures of tissues. Manual segmentation method is very time-consuming, and it leads to life risk for the patient…
Evaluates deep learning models in histopathology for robustness and classification strategies.
problem Lack of comprehensive evaluation of histopathology models beyond accuracy.
method Developed a new methodology to evaluate models on five histopathology datasets, including vision transformers and CNNs.
result Identified insights into cancer classification strategies and robustness against stain variations.
Study uses image analysis to predict MSI status in tumors.
problem Challenges in distinguishing MSI from its counterpart.
method Interpretable pathological image analysis strategies using Haematoxylin and eosin-stained images.
result Strategies achieve decent performance in MSI prediction.
Volumetric analysis of brain ventricle (BV) structure is a key tool in the study of central nervous system development in embryonic mice. High-frequency ultrasound (HFU) is the only non-invasive, real-time modality available for rapid volumetric imaging of embryos in utero. However, manual segmentation of the BV from H…
We consider 3-dimensional pseudo-manifolds M with a given set of marked point V such that M-V is the interior of a compact 3-manifold with boundary. An ideal triangulation T of (M, V ) has V as its set of vertices. A branching (T, b) enhances T to a Delta-complex. Branched triangulations of (M, V ) are considered up to…
Hierarchical CNNs improve diagnosis of GI diseases from histopathological images.
problem Diagnosing GI diseases from histopathological images is challenging due to heterogeneity and shared features.
method Embedded a class hierarchy into a VGGNet to address the hierarchical structure of GI diseases.
result The hierarchical model achieved better results than a flat model for multi-category diagnosis of GI disorders.
WILDS 2.0 expands benchmark datasets for unsupervised adaptation.
problem Leveraging unlabeled data for distribution shifts in real-world applications.
method Curated unlabeled data across various applications, tasks, and modalities.
result State-of-the-art methods perform poorly on WILDS datasets.
A deep learning approach classifies medical images hierarchically.
problem Limitations of traditional supervised classifiers in medical image classification.
method Hierarchical Medical Image Classification (HMIC) using deep learning models.
result HMIC achieved better performance in classifying medical images hierarchically.
MEM learns set functions from permutation-invariant data.
problem Learning from sets of instances with labels only on sets, not instances.
method Memory-based Exchangeable Model (MEM) with self-attention mechanism.
result Achieved 84.84% accuracy on lung cancer classification.
Manual count of mitotic figures, which is determined in the tumor region with the highest mitotic activity, is a key parameter of most tumor grading schemes. It can be, however, strongly dependent on the area selection due to uneven mitotic figure distribution in the tumor section.We aimed to assess the question, how s…
Deep learning speeds up whole heart MRI to 30 seconds.
problem Long acquisition times in whole heart MRI.
method Deep learning, specifically a 3D residual U-Net, to reconstruct high-resolution images from low-resolution data.
result Super-resolution images show better edge sharpness and fewer artefacts than low-resolution images.
We propose a sliding surface for systems on the Lie group . The sliding surface is shown to be a Lie subgroup. The reduced-order dynamics along the sliding subgroup have an almost globally asymptotically stable equilibrium. The sliding surface is used to design a sliding-mode controller for t…
Automatically counts microglial cells in rat spinal cord images, providing precise counts and uncertainty estimates.
problem Counting microglial cells in small, heterogeneous datasets is time-consuming and requires extensive training.
method Pre-processing to filter images, designing a non-parametric, non-linear kernel counter, providing uncertainty estimation.
result The method can provide precise counts and uncertainty estimates in small datasets, even with expert opinions.
New robustness certificates for streaming models with a sliding window.
problem Applying robustness certificates to streaming data with correlated inputs.
method Deriving robustness certificates for models using a sliding window over a sequence of potentially correlated inputs.
result Guarantees hold for the average model performance across the entire stream, independent of stream size.
Brain imaging analysis on clinically acquired computed tomography (CT) is essential for the diagnosis, risk prediction of progression, and treatment of the structural phenotypes of traumatic brain injury (TBI). However, in real clinical imaging scenarios, entire body CT images (e.g., neck, abdomen, chest, pelvis) are t…
A new method for deep multiple instance learning using self-attention.
problem Classifying bags of instances with dependencies.
method Introducing Self-Attention-based aggregation operation for bags of instances.
result SA-AbMILP outperforms other models in various datasets.
A CNN-based method detects and counts corn kernels from images.
problem Manual counting of corn kernels is labor-intensive and prone to error.
method Sliding window approach with CNN for detection and NMS for overlapping removal.
result The method successfully detects and counts kernels with low error.
Satellite images improve real-estate price predictions.
problem Improving accuracy of real-estate price predictions.
method Used convolutional neural networks (CNN) to incorporate satellite image data.
result CNN model trained on satellite images and structured data performs 7% better in MAE.
Study confirms sparse coding in whole brain using MRI data.
problem Sparse coding in the whole brain's neural activities.
method Applied various matrix factorization methods to fMRI data.
result Sparse coding hypothesis in information representation in the whole human brain is confirmed.
Proposes manifold-based unsupervised anomaly detection for visual data.
problem Rare anomalies in unlabeled data.
method Constant curvature manifolds, hyperspherical Variational Auto-Encoders (VAE) with gyroplane layer.
result State-of-the-art results on visual anomaly benchmarks and histopathology.
A 3-stage method enhances hyperspectral image classification accuracy.
problem Classifying detailed classes in hyperspectral images with limited labeled data.
method Uses Nested Sliding Window and PCA for spatial consistency, SVM for spectral estimation, and TV model for spatial smoothing.
result Our method outperforms state-of-the-art algorithms, especially in scenarios with small training sets.
Universally valid ground truth is almost impossible to obtain or would come at a very high cost. For supervised learning without universally valid ground truth, a recommended approach is applying crowdsourcing: Gathering a large data set annotated by multiple individuals of varying possibly expertise levels and inferri…
Aim: To review how machine learning (ML) is applied to imaging biomarkers in neuro-oncology, in particular for diagnosis, prognosis, and treatment response monitoring. Materials and Methods: The PubMed and MEDLINE databases were searched for articles published before September 2018 using relevant search terms. The sear…
Due to advances in sensors, growing large and complex medical image data have the ability to visualize the pathological change in the cellular or even the molecular level or anatomical changes in tissues and organs. As a consequence, the medical images have the potential to enhance diagnosis of disease, prediction of c…
The paper analyzes the sliding regret of stochastic bandit algorithms.
problem Measuring the one-shot behavior of no-regret algorithms in stochastic bandits.
method Introducing sliding regret to measure the worst pseudo-regret over a time-window.
result Randomized methods have optimal sliding regret, while index policies have the worst possible sliding regret.