A Digital Pathology application for whole-slide histopathology image analysis based on genetic algorithm and Convolutional Networks

Author(s):  
Mateo Puerto ◽  
Tania Vargas ◽  
Angel Cruz-Roa
2021 ◽  
Vol 68 ◽  
pp. 101849
Author(s):  
Maxime W. Lafarge ◽  
Erik J. Bekkers ◽  
Josien P.W. Pluim ◽  
Remco Duits ◽  
Mitko Veta

PLoS ONE ◽  
2021 ◽  
Vol 16 (5) ◽  
pp. e0251521
Author(s):  
Jun Ruan ◽  
Zhikui Zhu ◽  
Chenchen Wu ◽  
Guanglu Ye ◽  
Jingfan Zhou ◽  
...  

Pathologists generally pan, focus, zoom and scan tissue biopsies either under microscopes or on digital images for diagnosis. With the rapid development of whole-slide digital scanners for histopathology, computer-assisted digital pathology image analysis has attracted increasing clinical attention. Thus, the working style of pathologists is also beginning to change. Computer-assisted image analysis systems have been developed to help pathologists perform basic examinations. This paper presents a novel lightweight detection framework for automatic tumor detection in whole-slide histopathology images. We develop the Double Magnification Combination (DMC) classifier, which is a modified DenseNet-40 to make patch-level predictions with only 0.3 million parameters. To improve the detection performance of multiple instances, we propose an improved adaptive sampling method with superpixel segmentation and introduce a new heuristic factor, local sampling density, as the convergence condition of iterations. In postprocessing, we use a CNN model with 4 convolutional layers to regulate the patch-level predictions based on the predictions of adjacent sampling points and use linear interpolation to generate a tumor probability heatmap. The entire framework was trained and validated using the dataset from the Camelyon16 Grand Challenge and Hubei Cancer Hospital. In our experiments, the average AUC was 0.95 in the test set for pixel-level detection.


2021 ◽  
pp. jclinpath-2020-207351
Author(s):  
Jenny Fitzgerald ◽  
Debra Higgins ◽  
Claudia Mazo Vargas ◽  
William Watson ◽  
Catherine Mooney ◽  
...  

Clinical workflows in oncology depend on predictive and prognostic biomarkers. However, the growing number of complex biomarkers contributes to costly and delayed decision-making in routine oncology care and treatment. As cancer is expected to rank as the leading cause of death and the single most important barrier to increasing life expectancy in the 21st century, there is a major emphasis on precision medicine, particularly individualisation of treatment through better prediction of patient outcome. Over the past few years, both surgical and pathology specialties have suffered cutbacks and a low uptake of pathology specialists means a solution is required to enable high-throughput screening and personalised treatment in this area to alleviate bottlenecks. Digital imaging in pathology has undergone an exponential period of growth. Deep-learning (DL) platforms for hematoxylin and eosin (H&E) image analysis, with preliminary artificial intelligence (AI)-based grading capabilities of specimens, can evaluate image characteristics which may not be visually apparent to a pathologist and offer new possibilities for better modelling of disease appearance and possibly improve the prediction of disease stage and patient outcome. Although digital pathology and AI are still emerging areas, they are the critical components for advancing personalised medicine. Integration of transcriptomic analysis, clinical information and AI-based image analysis is yet an uncultivated field by which healthcare professionals can make improved treatment decisions in cancer. This short review describes the potential application of integrative AI in offering better detection, quantification, classification, prognosis and prediction of breast and prostate cancer and also highlights the utilisation of machine learning systems in biomarker evaluation.


2015 ◽  
Vol 7 (4) ◽  
pp. 4318-4342 ◽  
Author(s):  
Jie Dou ◽  
Kuan-Tsung Chang ◽  
Shuisen Chen ◽  
Ali Yunus ◽  
Jin-King Liu ◽  
...  

Sensors ◽  
2019 ◽  
Vol 20 (1) ◽  
pp. 141
Author(s):  
Jianguang Li ◽  
Wen Li ◽  
Cong Jin ◽  
Lijuan Yang ◽  
Hui He

The segmentation of buildings in remote-sensing (RS) images plays an important role in monitoring landscape changes. Quantification of these changes can be used to balance economic and environmental benefits and most importantly, to support the sustainable urban development. Deep learning has been upgrading the techniques for RS image analysis. However, it requires a large-scale data set for hyper-parameter optimization. To address this issue, the concept of “one view per city” is proposed and it explores the use of one RS image for parameter settings with the purpose of handling the rest images of the same city by the trained model. The proposal of this concept comes from the observation that buildings of a same city in single-source RS images demonstrate similar intensity distributions. To verify the feasibility, a proof-of-concept study is conducted and five fully convolutional networks are evaluated on five cities in the Inria Aerial Image Labeling database. Experimental results suggest that the concept can be explored to decrease the number of images for model training and it enables us to achieve competitive performance in buildings segmentation with decreased time consumption. Based on model optimization and universal image representation, it is full of potential to improve the segmentation performance, to enhance the generalization capacity, and to extend the application of the concept in RS image analysis.


Sign in / Sign up

Export Citation Format

Share Document