Deep learning based multi-organ segmentation and metastases segmentation in whole mouse body and the cryo-imaging cancer imaging and therapy analysis platform (CITAP)

2020 ◽  
Author(s):  
Yiqiao Liu ◽  
Madhu Gargesha ◽  
Mohammed Qutaish ◽  
Zhuxian Zhou ◽  
Bryan Scott ◽  
...  
Keyword(s):  
Deep Learning ◽  
Cancer Imaging ◽  
Analysis Platform

scholarly journals Artificial intelligence in multiparametric prostate cancer imaging with focus on deep-learning methods

2020 ◽  
Vol 189 ◽  
pp. 105316 ◽  
Author(s):  
Rogier R. Wildeboer ◽  
Ruud J.G. van Sloun ◽  
Hessel Wijkstra ◽  
Massimo Mischi
Keyword(s):  
Prostate Cancer ◽  
Artificial Intelligence ◽  
Deep Learning ◽  
Cancer Imaging ◽  
Learning Methods

MP09-12 AN AUTOMATED NOVEL DEEP LEARNING H&E IMAGE ANALYSIS PLATFORM OUTPERFORMS CLINICAL ONLY MODELS AND GLEASON GRADING TO PREDICT POSTOPERATIVE DISEASE RECURRENCE

2020 ◽  
Vol 203 ◽  
pp. e120
Author(s):  
Gerardo Fernandez* ◽  
Richard Scott ◽  
Abishek Sainath Madduri ◽  
Marcel Prastawa ◽  
Bahram Marami ◽  
...  
Keyword(s):  
Image Analysis ◽  
Deep Learning ◽  
Disease Recurrence ◽  
Gleason Grading ◽  
Analysis Platform

scholarly journals An interactive deep learning-based approach reveals mitochondrial cristae topologies

2021 ◽  
Author(s):  
Shogo Suga ◽  
Koki Nakamura ◽  
Bruno M Humbel ◽  
Hiroki Kawai ◽  
Yusuke Hirabayashi
Keyword(s):  
Deep Learning ◽  
Electron Tomography ◽  
Prediction Method ◽  
Regulatory Function ◽  
Tubular Structures ◽  
Mitochondrial Membranes ◽  
Accurate Analysis ◽  
Human In The Loop ◽  
Serial Scanning ◽  
Analysis Platform

Outer and inner mitochondrial membranes are highly specialized structures with distinct functional properties. Reconstructing complex 3D ultrastructural features of mitochondrial membranes at the nanoscale requires analysis of large volumes of serial scanning electron tomography data. While deep-learning-based methods improved in sophistication recently, time-consuming human intervention processes remain major roadblocks for efficient and accurate analysis of organelle ultrastructure. In order to overcome this limitation, we developed a deep-learning image analysis platform called Python-based Human-In-the-LOop Workflows (PHILOW). Our implementation of an iterative segmentation algorithm and Three-Axis-Prediction method not only improved segmentation speed, but also provided unprecedented ultrastructural detail of whole mitochondria and cristae. Using PHILOW, we found that 42% of cristae surface exhibits tubular structures that are not recognizable in light microscopy and 2D electron microscopy. Furthermore, we unraveled a fundamental new regulatory function for the dynamin-related GTPase Optic Atrophy 1 (OPA1) in controlling the balance between lamellar versus tubular cristae subdomains.

scholarly journals AirSurf-Lettuce: an aerial image analysis platform for ultra-scale field phenotyping and precision agriculture using computer vision and deep learning

2019 ◽  
Author(s):  
Alan Bauer ◽  
Aaron George Bostrom ◽  
Joshua Ball ◽  
Christopher Applegate ◽  
Tao Cheng ◽  
...  
Keyword(s):  
Computer Vision ◽  
Image Analysis ◽  
Deep Learning ◽  
Precision Agriculture ◽  
Large Scale ◽  
Vegetation Index ◽  
Aerial Images ◽  
Aerial Image ◽  
Analysis Platform ◽  
Aerial Image Analysis

AbstractAerial imagery is regularly used by farmers and growers to monitor crops during the growing season. To extract meaningful phenotypic information from large-scale aerial images collected regularly from the field, high-throughput analytic solutions are required, which not only produce high-quality measures of key crop traits, but also support agricultural practitioners to make reliable management decisions of their crops. Here, we report AirSurf-Lettuce, an automated and open-source aerial image analysis platform that combines modern computer vision, up-to-date machine learning, and modular software engineering to measure yield-related phenotypes of millions of lettuces across the field. Utilising ultra-large normalized difference vegetation index (NDVI) images acquired by fixed-wing light aircrafts together with a deep-learning classifier trained with over 100,000 labelled lettuce signals, the platform is capable of scoring and categorising iceberg lettuces with high accuracy (>98%). Furthermore, novel analysis functions have been developed to map lettuce size distribution in the field, based on which global positioning system (GPS) tagged harvest regions can be derived to enable growers and farmers’ precise harvest strategies and marketability estimates before the harvest.

scholarly journals MAN VS MACHINE: AN INTER-OBSERVER STUDY OF A DEEP LEARNING IVUS ANALYSIS PLATFORM AGAINST 3 OBSERVERS

2021 ◽  
Vol 77 (18) ◽  
pp. 1207
Author(s):  
David Molony ◽  
Jasmine Chan ◽  
Sameer Khawaja ◽  
Hossein Hosseini ◽  
Adam Brown ◽  
...  
Keyword(s):  
Deep Learning ◽  
Observer Study ◽  
Analysis Platform

scholarly journals Artificial Intelligence-Based Analytics for Diagnosis of Small Bowel Enteropathies and Black Box Feature Detection

2020 ◽  
Author(s):  
Sana Syed ◽  
Lubaina Ehsan ◽  
Aman Shrivastava ◽  
Saurav Sengupta ◽  
Marium Khan ◽  
...  
Keyword(s):  
Artificial Intelligence ◽  
Neural Networks ◽  
Decision Making ◽  
Image Analysis ◽  
Deep Learning ◽  
Small Bowel ◽  
Classification Accuracy ◽  
Black Box ◽  
Decision Making Process ◽  
Analysis Platform

Objectives: Striking histopathological overlap between distinct but related conditions poses a significant disease diagnostic challenge. There is a major clinical need to develop computational methods enabling clinicians to translate heterogeneous biomedical images into accurate and quantitative diagnostics. This need is particularly salient with small bowel enteropathies; Environmental Enteropathy (EE) and Celiac Disease (CD). We built upon our preliminary analysis by developing an artificial intelligence (AI)-based image analysis platform utilizing deep learning convolutional neural networks (CNNs) for these enteropathies. Methods: Data for secondary analysis was obtained from three primary studies at different sites. The image analysis platform for EE and CD was developed using convolutional neural networks (CNNs: ResNet and custom Shallow CNN). Gradient-weighted Class Activation Mappings (Grad-CAMs) were used to visualize the decision making process of the models. A team of medical experts simultaneously reviewed the stain color normalized images done for bias reduction and Grad-CAM visualizations to confirm structural preservation and biological relevance, respectively. Results: 461 high-resolution biopsy images from 150 children were acquired. Median age (interquartile range) was 37.5 (19.0 to 121.5) months with a roughly equal sex distribution; 77 males (51.3%). ResNet50 and Shallow CNN demonstrated 98% and 96% case-detection accuracy, respectively, which increased to 98.3% with an ensemble. Grad-CAMs demonstrated ability of the models to learn distinct microscopic morphological features. Conclusion: Our AI-based image analysis platform demonstrated high classification accuracy for small bowel enteropathies which was capable of identifying biologically relevant microscopic features, emulating human pathologist decision making process, performing in the case of suboptimal computational environment, and being modified for improving disease classification accuracy. Grad-CAMs that were employed illuminated the otherwise black box of deep learning in medicine, allowing for increased physician confidence in adopting these new technologies in clinical practice.

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