A deep learning framework for context-aware mitotic activity estimation in whole slide images

2019 ◽  
Author(s):  
Pushpak Pati ◽  
Raul Catena ◽  
Orcun Goksel ◽  
Maria Gabrani
Keyword(s):  
Deep Learning ◽  
Mitotic Activity ◽  
Context Aware ◽  
Learning Framework ◽  
Activity Estimation ◽  
Whole Slide Images

scholarly journals Predicting gastric cancer outcome from resected lymph node histopathology images using deep learning

2021 ◽  
Vol 12 (1) ◽  
Author(s):  
Xiaodong Wang ◽  
Ying Chen ◽  
Yunshu Gao ◽  
Huiqing Zhang ◽  
Zehui Guan ◽  
...  
Keyword(s):  
Gastric Cancer ◽  
Deep Learning ◽  
Lymph Node ◽  
Lymph Nodes ◽  
Main Method ◽  
Learning Framework ◽  
Prognostic Assessment ◽  
N Stage ◽  
Cancer Outcome ◽  
Whole Slide Images

AbstractN-staging is a determining factor for prognostic assessment and decision-making for stage-based cancer therapeutic strategies. Visual inspection of whole-slides of intact lymph nodes is currently the main method used by pathologists to calculate the number of metastatic lymph nodes (MLNs). Moreover, even at the same N stage, the outcome of patients varies dramatically. Here, we propose a deep-learning framework for analyzing lymph node whole-slide images (WSIs) to identify lymph nodes and tumor regions, and then to uncover tumor-area-to-MLN-area ratio (T/MLN). After training, our model’s tumor detection performance was comparable to that of experienced pathologists and achieved similar performance on two independent gastric cancer validation cohorts. Further, we demonstrate that T/MLN is an interpretable independent prognostic factor. These findings indicate that deep-learning models could assist not only pathologists in detecting lymph nodes with metastases but also oncologists in exploring new prognostic factors, especially those that are difficult to calculate manually.

scholarly journals Efficient Stain-Aware Nuclei Segmentation Deep Learning Framework for Multi-Center Histopathological Images

Electronics ◽  
2021 ◽  
Vol 10 (8) ◽  
pp. 954
Author(s):  
Loay Hassan ◽  
Mohamed Abdel-Nasser ◽  
Adel Saleh ◽  
Osama A. Omer ◽  
Domenec Puig
Keyword(s):  
Deep Learning ◽  
Choquet Integral ◽  
Adjacent Cell ◽  
Cell Nuclei ◽  
Nuclei Segmentation ◽  
Learning Framework ◽  
Segmentation Methods ◽  
Histopathological Images ◽  
The Individual ◽  
Whole Slide Images

Existing nuclei segmentation methods have obtained limited results with multi-center and multi-organ whole-slide images (WSIs) due to the use of different stains, scanners, overlapping, clumped nuclei, and the ambiguous boundary between adjacent cell nuclei. In an attempt to address these problems, we propose an efficient stain-aware nuclei segmentation method based on deep learning for multi-center WSIs. Unlike all related works that exploit a single-stain template from the dataset to normalize WSIs, we propose an efficient algorithm to select a set of stain templates based on stain clustering. Individual deep learning models are trained based on each stain template, and then, an aggregation function based on the Choquet integral is employed to combine the segmentation masks of the individual models. With a challenging multi-center multi-organ WSIs dataset, the experimental results demonstrate that the proposed method outperforms the state-of-art nuclei segmentation methods with aggregated Jaccard index (AJI) and F1-scores of 73.23% and 89.32%, respectively, while achieving a lower number of parameters.

A Deep Learning Framework for Prediction of Retinal Disorders

2020 ◽  
Author(s):  
Raniyaharini R ◽  
Madhumitha K ◽  
Mishaa S ◽  
Virajaravi R
Keyword(s):  
Deep Learning ◽  
Learning Framework ◽  
Retinal Disorders

COVID-19 pneumonia diagnosis using a simple 2D deep learning framework with a single chest CT image (Preprint)

2020 ◽  
Author(s):  
Jinseok Lee
Keyword(s):  
Deep Learning ◽  
Diagnostic Performance ◽  
Ct Images ◽  
Chest Ct ◽  
University Hospital ◽  
Detection Accuracy ◽  
Ct Image ◽  
Test Dataset ◽  
Learning Framework ◽  
Testing Dataset

BACKGROUND The coronavirus disease (COVID-19) has explosively spread worldwide since the beginning of 2020. According to a multinational consensus statement from the Fleischner Society, computed tomography (CT) can be used as a relevant screening tool owing to its higher sensitivity for detecting early pneumonic changes. However, physicians are extremely busy fighting COVID-19 in this era of worldwide crisis. Thus, it is crucial to accelerate the development of an artificial intelligence (AI) diagnostic tool to support physicians. OBJECTIVE We aimed to quickly develop an AI technique to diagnose COVID-19 pneumonia and differentiate it from non-COVID pneumonia and non-pneumonia diseases on CT. METHODS A simple 2D deep learning framework, named fast-track COVID-19 classification network (FCONet), was developed to diagnose COVID-19 pneumonia based on a single chest CT image. FCONet was developed by transfer learning, using one of the four state-of-art pre-trained deep learning models (VGG16, ResNet50, InceptionV3, or Xception) as a backbone. For training and testing of FCONet, we collected 3,993 chest CT images of patients with COVID-19 pneumonia, other pneumonia, and non-pneumonia diseases from Wonkwang University Hospital, Chonnam National University Hospital, and the Italian Society of Medical and Interventional Radiology public database. These CT images were split into a training and a testing set at a ratio of 8:2. For the test dataset, the diagnostic performance to diagnose COVID-19 pneumonia was compared among the four pre-trained FCONet models. In addition, we tested the FCONet models on an additional external testing dataset extracted from the embedded low-quality chest CT images of COVID-19 pneumonia in recently published papers. RESULTS Of the four pre-trained models of FCONet, the ResNet50 showed excellent diagnostic performance (sensitivity 99.58%, specificity 100%, and accuracy 99.87%) and outperformed the other three pre-trained models in testing dataset. In additional external test dataset using low-quality CT images, the detection accuracy of the ResNet50 model was the highest (96.97%), followed by Xception, InceptionV3, and VGG16 (90.71%, 89.38%, and 87.12%, respectively). CONCLUSIONS The FCONet, a simple 2D deep learning framework based on a single chest CT image, provides excellent diagnostic performance in detecting COVID-19 pneumonia. Based on our testing dataset, the ResNet50-based FCONet might be the best model, as it outperformed other FCONet models based on VGG16, Xception, and InceptionV3.

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