Transfer deep learning mammography diagnostic model from public datasets to clinical practice: a comparison of model performance and mammography datasets

2018 ◽  
Author(s):  
Xiaoqin Wang ◽  
JinZe Liu ◽  
Quan Chen ◽  
Kyle luo ◽  
Xiaofei Zhang
Keyword(s):  
Deep Learning ◽  
Clinical Practice ◽  
Model Performance ◽  
Diagnostic Model ◽  
Public Datasets

scholarly journals Quality control stress test for deep learning-based diagnostic model in digital pathology

2021 ◽  
Author(s):  
Birgid Schömig-Markiefka ◽  
Alexey Pryalukhin ◽  
Wolfgang Hulla ◽  
Andrey Bychkov ◽  
Junya Fukuoka ◽  
...  
Keyword(s):  
Deep Learning ◽  
Cancer Detection ◽  
Stress Testing ◽  
Computational Analysis ◽  
Stress Test ◽  
Digital Pathology ◽  
Model Performance ◽  
Diagnostic Model ◽  
Model Accuracy ◽  
Diagnostic Models

AbstractDigital pathology provides a possibility for computational analysis of histological slides and automatization of routine pathological tasks. Histological slides are very heterogeneous concerning staining, sections’ thickness, and artifacts arising during tissue processing, cutting, staining, and digitization. In this study, we digitally reproduce major types of artifacts. Using six datasets from four different institutions digitized by different scanner systems, we systematically explore artifacts’ influence on the accuracy of the pre-trained, validated, deep learning-based model for prostate cancer detection in histological slides. We provide evidence that any histological artifact dependent on severity can lead to a substantial loss in model performance. Strategies for the prevention of diagnostic model accuracy losses in the context of artifacts are warranted. Stress-testing of diagnostic models using synthetically generated artifacts might be an essential step during clinical validation of deep learning-based algorithms.

scholarly journals Deep Learning Based Syndrome Diagnosis of Chronic Gastritis

2014 ◽  
Vol 2014 ◽  
pp. 1-8 ◽  
Author(s):  
Guo-Ping Liu ◽  
Jian-Jun Yan ◽  
Yi-Qin Wang ◽  
Wu Zheng ◽  
Tao Zhong ◽  
...  
Keyword(s):  
Deep Learning ◽  
Clinical Practice ◽  
Chronic Gastritis ◽  
Diagnostic Model ◽  
Nonlinear Relationship ◽  
Cognitive Perspective ◽  
Multilabel Learning ◽  
Diagnostic Models ◽  
Syndrome Diagnosis ◽  
The Brain

In Traditional Chinese Medicine (TCM), most of the algorithms used to solve problems of syndrome diagnosis are superficial structure algorithms and not considering the cognitive perspective from the brain. However, in clinical practice, there is complex and nonlinear relationship between symptoms (signs) and syndrome. So we employed deep leaning and multilabel learning to construct the syndrome diagnostic model for chronic gastritis (CG) in TCM. The results showed that deep learning could improve the accuracy of syndrome recognition. Moreover, the studies will provide a reference for constructing syndrome diagnostic models and guide clinical practice.

scholarly journals Evaluation of the feasibility of explainable computer-aided detection of cardiomegaly on chest radiographs using deep learning

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Mu Sook Lee ◽  
Yong Soo Kim ◽  
Minki Kim ◽  
Muhammad Usman ◽  
Shi Sub Byon ◽  
...  
Keyword(s):  
Deep Learning ◽  
Diagnostic Performance ◽  
Absolute Error ◽  
Training Dataset ◽  
Computer Aided Detection ◽  
Test Dataset ◽  
Cardiothoracic Ratio ◽  
Computer Aided ◽  
Chest X Ray ◽  
Public Datasets

AbstractWe examined the feasibility of explainable computer-aided detection of cardiomegaly in routine clinical practice using segmentation-based methods. Overall, 793 retrospectively acquired posterior–anterior (PA) chest X-ray images (CXRs) of 793 patients were used to train deep learning (DL) models for lung and heart segmentation. The training dataset included PA CXRs from two public datasets and in-house PA CXRs. Two fully automated segmentation-based methods using state-of-the-art DL models for lung and heart segmentation were developed. The diagnostic performance was assessed and the reliability of the automatic cardiothoracic ratio (CTR) calculation was determined using the mean absolute error and paired t-test. The effects of thoracic pathological conditions on performance were assessed using subgroup analysis. One thousand PA CXRs of 1000 patients (480 men, 520 women; mean age 63 ± 23 years) were included. The CTR values derived from the DL models and diagnostic performance exhibited excellent agreement with reference standards for the whole test dataset. Performance of segmentation-based methods differed based on thoracic conditions. When tested using CXRs with lesions obscuring heart borders, the performance was lower than that for other thoracic pathological findings. Thus, segmentation-based methods using DL could detect cardiomegaly; however, the feasibility of computer-aided detection of cardiomegaly without human intervention was limited.

scholarly journals Effectiveness of transfer learning for enhancing tumor classification with a convolutional neural network on frozen sections

2020 ◽  
Vol 10 (1) ◽  
Author(s):  
Young-Gon Kim ◽  
Sungchul Kim ◽  
Cristina Eunbee Cho ◽  
In Hye Song ◽  
Hee Jin Lee ◽  
...  
Keyword(s):  
Neural Network ◽  
Deep Learning ◽  
Convolutional Neural Network ◽  
Transfer Learning ◽  
Frozen Section ◽  
Medical Center ◽  
External Validation ◽  
Model Performance ◽  
Classification Model ◽  
Training Dataset

AbstractFast and accurate confirmation of metastasis on the frozen tissue section of intraoperative sentinel lymph node biopsy is an essential tool for critical surgical decisions. However, accurate diagnosis by pathologists is difficult within the time limitations. Training a robust and accurate deep learning model is also difficult owing to the limited number of frozen datasets with high quality labels. To overcome these issues, we validated the effectiveness of transfer learning from CAMELYON16 to improve performance of the convolutional neural network (CNN)-based classification model on our frozen dataset (N = 297) from Asan Medical Center (AMC). Among the 297 whole slide images (WSIs), 157 and 40 WSIs were used to train deep learning models with different dataset ratios at 2, 4, 8, 20, 40, and 100%. The remaining, i.e., 100 WSIs, were used to validate model performance in terms of patch- and slide-level classification. An additional 228 WSIs from Seoul National University Bundang Hospital (SNUBH) were used as an external validation. Three initial weights, i.e., scratch-based (random initialization), ImageNet-based, and CAMELYON16-based models were used to validate their effectiveness in external validation. In the patch-level classification results on the AMC dataset, CAMELYON16-based models trained with a small dataset (up to 40%, i.e., 62 WSIs) showed a significantly higher area under the curve (AUC) of 0.929 than those of the scratch- and ImageNet-based models at 0.897 and 0.919, respectively, while CAMELYON16-based and ImageNet-based models trained with 100% of the training dataset showed comparable AUCs at 0.944 and 0.943, respectively. For the external validation, CAMELYON16-based models showed higher AUCs than those of the scratch- and ImageNet-based models. Model performance for slide feasibility of the transfer learning to enhance model performance was validated in the case of frozen section datasets with limited numbers.

scholarly journals A deep-learning method using computed tomography scout images for estimating patient body weight

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Shota Ichikawa ◽  
Misaki Hamada ◽  
Hiroyuki Sugimori
Keyword(s):  
Computed Tomography ◽  
Body Weight ◽  
Deep Learning ◽  
Contrast Medium ◽  
Model Performance ◽  
Ct Scanning ◽  
Drug Dosing ◽  
Body Weights ◽  
Dose Management ◽  
Medium Dose

AbstractBody weight is an indispensable parameter for determination of contrast medium dose, appropriate drug dosing, or management of radiation dose. However, we cannot always determine the accurate patient body weight at the time of computed tomography (CT) scanning, especially in emergency care. Time-efficient methods to estimate body weight with high accuracy before diagnostic CT scans currently do not exist. In this study, on the basis of 1831 chest and 519 abdominal CT scout images with the corresponding body weights, we developed and evaluated deep-learning models capable of automatically predicting body weight from CT scout images. In the model performance assessment, there were strong correlations between the actual and predicted body weights in both chest (ρ = 0.947, p < 0.001) and abdominal datasets (ρ = 0.869, p < 0.001). The mean absolute errors were 2.75 kg and 4.77 kg for the chest and abdominal datasets, respectively. Our proposed method with deep learning is useful for estimating body weights from CT scout images with clinically acceptable accuracy and potentially could be useful for determining the contrast medium dose and CT dose management in adult patients with unknown body weight.

scholarly journals Robust deep learning pipeline for PVC beats localization

2021 ◽  
Vol 29 ◽  
pp. 475-486
Author(s):  
Bohdan Petryshak ◽  
Illia Kachko ◽  
Mykola Maksymenko ◽  
Oles Dobosevych
Keyword(s):  
Neural Networks ◽  
Deep Learning ◽  
Premature Ventricular Contraction ◽  
Ecg Signal ◽  
Ventricular Contraction ◽  
Localization Task ◽  
Robust Performance ◽  
Extensive Evaluation ◽  
Decoder Architecture ◽  
Public Datasets

BACKGROUND: Premature ventricular contraction (PVC) is among the most frequently occurring types of arrhythmias. Existing approaches for automated PVC identification suffer from a range of disadvantages related to hand-crafted features and benchmarking on datasets with a tiny sample of PVC beats. OBJECTIVE: The main objective is to address the drawbacks described above in the proposed framework, which takes a raw ECG signal as an input and localizes R peaks of the PVC beats. METHODS: Our method consists of two neural networks. First, an encoder-decoder architecture trained on PVC-rich dataset localizes the R peak of both Normal and anomalous heartbeats. Provided R peaks positions, our CardioIncNet model does the delineation of healthy versus PVC beats. RESULTS: We have performed an extensive evaluation of our pipeline with both single- and cross-dataset paradigms on three public datasets. Our approach results in over 0.99 and 0.979 F1-measure on both single- and cross-dataset paradigms for R peaks localization task and above 0.96 and 0.85 F1 score for the PVC beats classification task. CONCLUSIONS: We have shown a method that provides robust performance beyond the beats of Normal nature and clearly outperforms classical algorithms both in the case of a single and cross-dataset evaluation. We provide a Github1 repository for the reproduction of the results.

scholarly journals Deep Learning Can Differentiate IDH-Mutant from IDH-Wild GBM

2021 ◽  
Vol 11 (4) ◽  
pp. 290
Author(s):  
Luca Pasquini ◽  
Antonio Napolitano ◽  
Emanuela Tagliente ◽  
Francesco Dellepiane ◽  
Martina Lucignani ◽  
...  
Keyword(s):  
Deep Learning ◽  
Hypoxia Inducible Factor ◽  
Model Performance ◽  
High Grade Glioma ◽  
Learning Model ◽  
Dense Layer ◽  
Idh Mutation ◽  
Diagnostic Challenge ◽  
Who Grade ◽  
Deep Learning Model

Isocitrate dehydrogenase (IDH) mutant and wildtype glioblastoma multiforme (GBM) often show overlapping features on magnetic resonance imaging (MRI), representing a diagnostic challenge. Deep learning showed promising results for IDH identification in mixed low/high grade glioma populations; however, a GBM-specific model is still lacking in the literature. Our aim was to develop a GBM-tailored deep-learning model for IDH prediction by applying convoluted neural networks (CNN) on multiparametric MRI. We selected 100 adult patients with pathologically demonstrated WHO grade IV gliomas and IDH testing. MRI sequences included: MPRAGE, T1, T2, FLAIR, rCBV and ADC. The model consisted of a 4-block 2D CNN, applied to each MRI sequence. Probability of IDH mutation was obtained from the last dense layer of a softmax activation function. Model performance was evaluated in the test cohort considering categorical cross-entropy loss (CCEL) and accuracy. Calculated performance was: rCBV (accuracy 83%, CCEL 0.64), T1 (accuracy 77%, CCEL 1.4), FLAIR (accuracy 77%, CCEL 1.98), T2 (accuracy 67%, CCEL 2.41), MPRAGE (accuracy 66%, CCEL 2.55). Lower performance was achieved on ADC maps. We present a GBM-specific deep-learning model for IDH mutation prediction, with a maximal accuracy of 83% on rCBV maps. Highest predictivity achieved on perfusion images possibly reflects the known link between IDH and neoangiogenesis through the hypoxia inducible factor.

scholarly journals Sociotherapy in the Time of COVID-19: A Critical Position Paper on the Importance of Sociology

2021 ◽  
pp. 193672442199827
Author(s):  
Sheila L. Cavanagh
Keyword(s):  
Clinical Practice ◽  
Behavioral Treatment ◽  
Health Professions ◽  
Position Paper ◽  
Diagnostic Model ◽  
Cognitive Behavioral Treatment ◽  
Critical Position ◽  
Freudian Psychoanalysis ◽  
The Social ◽  
Regulated Health Professions Act

This paper contends that sociotherapy, a sociologically informed approach to therapy, is a viable alternative to the diagnostic model recognized by the College of Registered Psychotherapists in Ontario (CRPO). The Psychotherapy Act (2007) along with the Regulated Health Professions Act (1991) gives the CRPO authorization to regulate the practice of psychotherapy and to control titles affiliated with the act of psychotherapy. I offer a discussion of sociotherapy and socioanalysis as clinical alternatives to the conservative and normalizing approaches endorsed by the College. I situate sociotherapy and socioanalysis in the discipline of sociology and in relation to Freudian psychoanalysis. I offer my own sociotherapeutic practice as an illustration of how the societal and the psychological, the social, and the psychic must be engaged in concert. I underscore the importance of dialogue, as opposed to diagnostics, interpretation as opposed to assessments and psychosocial contemplation as opposed to cognitive-behavioral treatment in clinical practice.

scholarly journals Deep Learning Versus Logistic Regression to Predict Opioid Dose Reduction After Spinal Cord Stimulation

Neurosurgery ◽  
2020 ◽  
Vol 67 (Supplement_1) ◽  
Author(s):  
Syed M Adil ◽  
Lefko T Charalambous ◽  
Kelly R Murphy ◽  
Shervin Rahimpour ◽  
Stephen C Harward ◽  
...  
Keyword(s):  
Neural Network ◽  
Spinal Cord ◽  
Deep Learning ◽  
Dose Reduction ◽  
Spinal Cord Stimulation ◽  
Network Architecture ◽  
Characteristic Curve ◽  
Model Performance ◽  
Health Crisis ◽  
Opioid Dose

Abstract INTRODUCTION Opioid misuse persists as a public health crisis affecting approximately one in four Americans.1 Spinal cord stimulation (SCS) is a neuromodulation strategy to treat chronic pain, with one goal being decreased opioid consumption. Accurate prognostication about SCS success is key in optimizing surgical decision making for both physicians and patients. Deep learning, using neural network models such as the multilayer perceptron (MLP), enables accurate prediction of non-linear patterns and has widespread applications in healthcare. METHODS The IBM MarketScan® (IBM) database was queried for all patients ≥ 18 years old undergoing SCS from January 2010 to December 2015. Patients were categorized into opioid dose groups as follows: No Use, ≤ 20 morphine milligram equivalents (MME), 20–50 MME, 50–90 MME, and &gt;90 MME. We defined “opiate weaning” as moving into a lower opioid dose group (or remaining in the No Use group) during the 12 months following permanent SCS implantation. After pre-processing, there were 62 predictors spanning demographics, comorbidities, and pain medication history. We compared an MLP with four hidden layers to the LR model with L1 regularization. Model performance was assessed using area under the receiver operating characteristic curve (AUC) with 5-fold nested cross-validation. RESULTS Ultimately, 6,124 patients were included, of which 77% had used opioids for &gt;90 days within the 1-year pre-SCS and 72% had used &gt;5 types of medications during the 90 days prior to SCS. The mean age was 56 ± 13 years old. Collectively, 2,037 (33%) patients experienced opiate weaning. The AUC was 0.74 for the MLP and 0.73 for the LR model. CONCLUSION To our knowledge, we present the first use of deep learning to predict opioid weaning after SCS. Model performance was slightly better than regularized LR. Future efforts should focus on optimization of neural network architecture and hyperparameters to further improve model performance. Models should also be calibrated and externally validated on an independent dataset. Ultimately, such tools may assist both physicians and patients in predicting opioid dose reduction after SCS.

scholarly journals Enabling deeper learning on big data for materials informatics applications

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Dipendra Jha ◽  
Vishu Gupta ◽  
Logan Ward ◽  
Zijiang Yang ◽  
Christopher Wolverton ◽  
...  
Keyword(s):  
Neural Networks ◽  
Big Data ◽  
Deep Learning ◽  
Deep Neural Networks ◽  
Materials Science ◽  
Prediction Models ◽  
Model Performance ◽  
Materials Informatics ◽  
Learning Framework ◽  
Significant Attention

AbstractThe application of machine learning (ML) techniques in materials science has attracted significant attention in recent years, due to their impressive ability to efficiently extract data-driven linkages from various input materials representations to their output properties. While the application of traditional ML techniques has become quite ubiquitous, there have been limited applications of more advanced deep learning (DL) techniques, primarily because big materials datasets are relatively rare. Given the demonstrated potential and advantages of DL and the increasing availability of big materials datasets, it is attractive to go for deeper neural networks in a bid to boost model performance, but in reality, it leads to performance degradation due to the vanishing gradient problem. In this paper, we address the question of how to enable deeper learning for cases where big materials data is available. Here, we present a general deep learning framework based on Individual Residual learning (IRNet) composed of very deep neural networks that can work with any vector-based materials representation as input to build accurate property prediction models. We find that the proposed IRNet models can not only successfully alleviate the vanishing gradient problem and enable deeper learning, but also lead to significantly (up to 47%) better model accuracy as compared to plain deep neural networks and traditional ML techniques for a given input materials representation in the presence of big data.

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