scholarly journals DeepMQ: A Deep Learning Approach Based Myelin Quantification in Microscopic Fluorescence Images

2018 ◽  
Author(s):  
Sibel Çimen ◽  
Abdulkerim Çapar ◽  
Dursun Ali Ekinci ◽  
Umut Engin Ayten ◽  
Bilal Ersen Kerman ◽  
...  
Keyword(s):  
Image Analysis ◽  
Feature Extraction ◽  
Deep Learning ◽  
Neurological Diseases ◽  
Binary Classification ◽  
Signal Transmission ◽  
Machine Learning Techniques ◽  
Neuronal Communication ◽  
Learning Classifier ◽  
Learning Techniques

AbstractOligodendrocytes wrap around the axons and form the myelin. Myelin facilitates rapid neural signal transmission. Any damage to myelin disrupts neuronal communication leading to neurological diseases such as multiple sclerosis (MS). There is no cure for MS. This is, in part, due to lack of an efficient method for myelin quantification during drug screening. In this study, an image analysis based myelin sheath detection method, DeepMQ, is developed. The method consists of a feature extraction step followed by a deep learning based binary classification module. The images, which were acquired on a confocal microscope contain three channels and multiple z-sections. Each channel represents either oligodendroyctes, neurons, or nuclei. During feature extraction, 26-neighbours of each voxel is mapped onto a 2D feature image. This image is, then, fed to the deep learning classifier, in order to detect myelin. Results indicate that 93.38% accuracy is achieved in a set of fluorescence microscope images of mouse stem cell-derived oligodendroyctes and neurons. To the best of authors’ knowledge, this is the first study utilizing image analysis along with machine learning techniques to quantify myelination.

scholarly journals Evaluation of the Risk of Recurrence in Patients with Local Advanced Rectal Tumours by Different Radiomic Analysis Approaches

2021 ◽  
Vol 2021 ◽  
pp. 1-9
Author(s):  
Alaa Khadidos ◽  
Adil Khadidos ◽  
Olfat M. Mirza ◽  
Tawfiq Hasanin ◽  
Wegayehu Enbeyle ◽  
...  
Keyword(s):  
Machine Learning ◽  
Image Analysis ◽  
Deep Learning ◽  
Locally Advanced ◽  
Textural Analysis ◽  
Machine Learning Techniques ◽  
Response To Treatment ◽  
Learning Techniques ◽  
Potential Applications ◽  
Analysis Models

The word radiomics, like all domains of type omics, assumes the existence of a large amount of data. Using artificial intelligence, in particular, different machine learning techniques, is a necessary step for better data exploitation. Classically, researchers in this field of radiomics have used conventional machine learning techniques (random forest, for example). More recently, deep learning, a subdomain of machine learning, has emerged. Its applications are increasing, and the results obtained so far have demonstrated their remarkable effectiveness. Several previous studies have explored the potential applications of radiomics in colorectal cancer. These potential applications can be grouped into several categories like evaluation of the reproducibility of texture data, prediction of response to treatment, prediction of the occurrence of metastases, and prediction of survival. Few studies, however, have explored the potential of radiomics in predicting recurrence-free survival. In this study, we evaluated and compared six conventional learning models and a deep learning model, based on MRI textural analysis of patients with locally advanced rectal tumours, correlated with the risk of recidivism; in traditional learning, we compared 2D image analysis models vs. 3D image analysis models, models based on a textural analysis of the tumour versus models taking into account the peritumoural environment in addition to the tumour itself. In deep learning, we built a 16-layer convolutional neural network model, driven by a 2D MRI image database comprising both the native images and the bounding box corresponding to each image.

scholarly journals Machine Learning Techniques used for the Histopathological Image Analysis of Oral Cancer-A Review

2020 ◽  
Vol 13 (1) ◽  
pp. 106-118
Author(s):  
Santisudha Panigrahi ◽  
Tripti Swarnkar
Keyword(s):  
Machine Learning ◽  
Image Analysis ◽  
Deep Learning ◽  
Oral Cancer ◽  
Oral Disease ◽  
Machine Learning Techniques ◽  
Learning Techniques ◽  
Histopathological Image ◽  
Histopathological Images ◽  
Histopathological Image Analysis

Oral diseases are the 6th most revealed malignancy happening in head and neck regions found mainly in south Asian countries. It is the most common cancer with fourteen deaths in an hour on a yearly basis, as per the WHO oral cancer incidence in India. Due to the cost of tests, mistakes in the recognition procedure, and the enormous remaining task at hand of the cytopathologist, oral growths cannot be diagnosed promptly. This area is open to be looked into by biomedical analysts to identify it at an early stage. At present, with the advent of entire slide computerized scanners and tissue histopathology, there is a gigantic aggregation of advanced digital histopathological images, which has prompted the necessity for their analysis. A lot of computer aided analysis techniques have been developed by utilizing machine learning strategies for prediction and prognosis of cancer. In this review paper, first various steps of obtaining histopathological images, followed by the visualization and classification done by the doctors are discussed. As machine learning techniques are well known, in the second part of this review, the works done for histopathological image analysis as well as other oral datasets using these strategies for growth prognosis and anticipation are discussed. Comparing the pitfalls of machine learning and how it has overcome by deep learning mostly for image recognition tasks are also discussed subsequently. The third part of the manuscript describes how deep learning is beneficial and widely used in different cancer domains. Due to the remarkable growth of deep learning and wide applicability, it is best suited for the prognosis of oral disease. The aim of this review is to provide insight to the researchers opting to work for oral cancer by implementing deep learning and artificial neural networks.

scholarly journals Incorporating Machine Learning into Established Bioinformatics Frameworks

2021 ◽  
Vol 22 (6) ◽  
pp. 2903
Author(s):  
Noam Auslander ◽  
Ayal B. Gussow ◽  
Eugene V. Koonin
Keyword(s):  
Machine Learning ◽  
Feature Extraction ◽  
Deep Learning ◽  
Predictive Models ◽  
Biological Networks ◽  
Machine Learning Techniques ◽  
Biomedical Data ◽  
Protein Structure Analysis ◽  
Automatic Feature Extraction ◽  
Learning Techniques

The exponential growth of biomedical data in recent years has urged the application of numerous machine learning techniques to address emerging problems in biology and clinical research. By enabling the automatic feature extraction, selection, and generation of predictive models, these methods can be used to efficiently study complex biological systems. Machine learning techniques are frequently integrated with bioinformatic methods, as well as curated databases and biological networks, to enhance training and validation, identify the best interpretable features, and enable feature and model investigation. Here, we review recently developed methods that incorporate machine learning within the same framework with techniques from molecular evolution, protein structure analysis, systems biology, and disease genomics. We outline the challenges posed for machine learning, and, in particular, deep learning in biomedicine, and suggest unique opportunities for machine learning techniques integrated with established bioinformatics approaches to overcome some of these challenges.

scholarly journals Patient Diet Recommendation System Using K Clique and Deep learning Classifiers

2020 ◽  
Vol 2 (2) ◽  
pp. 121-130
Author(s):  
Dr. Samuel Manoharan ◽  
Prof. Sathish
Keyword(s):  
Deep Learning ◽  
Recommendation System ◽  
Machine Learning Techniques ◽  
Data Set ◽  
Learning Classifier ◽  
Learning Classifiers ◽  
Learning Techniques ◽  
Quality Of Living ◽  
The Many ◽  
Gated Recurrent Units

There are several systems designed for the purpose of recommending. The recommending system has gained its prominence even in the medical industry for suggesting the diets for the patient’s, medicines to be taken, treatments to be taken etc. The recommendation system mainly enhances the robustness, extends protection against the many disease and improves the quality of living of an individual. So to automatically suggest the foods based on their health conditions and the level of sugar, blood pressure, protein, fat, cholesterol, age etc. the paper puts forth k-clique embedded deep learning classifier recommendation system for suggesting the diets for the patients. The K-clique incorporated in the recommendation system in an effort of getting an improved preciseness and increasing the accuracy of the deep learning classifier (gated recurrent units). The dataset for the empirical analysis of the developed system was performed with the data set of the patients collected over the internet as well as hospitals, information’s of about 50 patients were collected with thirteen features of various disease and thousand products with eight feature set. All these features were encoded and grouped into several clusters before applying into the deep learning classifiers. The better preciseness and the accuracy observed for the developed system experimentally is compared with the machine learning techniques such as logistic regression and Naïve Bayes and other deep learning classifiers such as the MLP and RNN to demonstrate the proficiency of the K-clique deep learning classifier based recommendation system (K-DLRS)

scholarly journals Auto-Colorization of Historical Images Using Deep Convolutional Neural Networks

Mathematics ◽  
2020 ◽  
Vol 8 (12) ◽  
pp. 2258
Author(s):  
Madhab Raj Joshi ◽  
Lewis Nkenyereye ◽  
Gyanendra Prasad Joshi ◽  
S. M. Riazul Islam ◽  
Mohammad Abdullah-Al-Wadud ◽  
...  
Keyword(s):  
Neural Network ◽  
Deep Learning ◽  
User Study ◽  
Mean Squared Error ◽  
Color Image ◽  
Machine Learning Techniques ◽  
Global Features ◽  
Black And White ◽  
Historical Images ◽  
Learning Techniques

Enhancement of Cultural Heritage such as historical images is very crucial to safeguard the diversity of cultures. Automated colorization of black and white images has been subject to extensive research through computer vision and machine learning techniques. Our research addresses the problem of generating a plausible colored photograph of ancient, historically black, and white images of Nepal using deep learning techniques without direct human intervention. Motivated by the recent success of deep learning techniques in image processing, a feed-forward, deep Convolutional Neural Network (CNN) in combination with Inception- ResnetV2 is being trained by sets of sample images using back-propagation to recognize the pattern in RGB and grayscale values. The trained neural network is then used to predict two a* and b* chroma channels given grayscale, L channel of test images. CNN vividly colorizes images with the help of the fusion layer accounting for local features as well as global features. Two objective functions, namely, Mean Squared Error (MSE) and Peak Signal-to-Noise Ratio (PSNR), are employed for objective quality assessment between the estimated color image and its ground truth. The model is trained on the dataset created by ourselves with 1.2 K historical images comprised of old and ancient photographs of Nepal, each having 256 × 256 resolution. The loss i.e., MSE, PSNR, and accuracy of the model are found to be 6.08%, 34.65 dB, and 75.23%, respectively. Other than presenting the training results, the public acceptance or subjective validation of the generated images is assessed by means of a user study where the model shows 41.71% of naturalness while evaluating colorization results.

scholarly journals Detection and Severity Evaluation of Combined Rail Defects Using Deep Learning

Vibration ◽  
2021 ◽  
Vol 4 (2) ◽  
pp. 341-356
Author(s):  
Jessada Sresakoolchai ◽  
Sakdirat Kaewunruen
Keyword(s):  
Neural Network ◽  
Machine Learning ◽  
Deep Learning ◽  
Mean Absolute Error ◽  
Absolute Error ◽  
Machine Learning Techniques ◽  
Rolling Stock ◽  
Raw Data ◽  
Learning Techniques ◽  
Combined Defects

Various techniques have been developed to detect railway defects. One of the popular techniques is machine learning. This unprecedented study applies deep learning, which is a branch of machine learning techniques, to detect and evaluate the severity of rail combined defects. The combined defects in the study are settlement and dipped joint. Features used to detect and evaluate the severity of combined defects are axle box accelerations simulated using a verified rolling stock dynamic behavior simulation called D-Track. A total of 1650 simulations are run to generate numerical data. Deep learning techniques used in the study are deep neural network (DNN), convolutional neural network (CNN), and recurrent neural network (RNN). Simulated data are used in two ways: simplified data and raw data. Simplified data are used to develop the DNN model, while raw data are used to develop the CNN and RNN model. For simplified data, features are extracted from raw data, which are the weight of rolling stock, the speed of rolling stock, and three peak and bottom accelerations from two wheels of rolling stock. In total, there are 14 features used as simplified data for developing the DNN model. For raw data, time-domain accelerations are used directly to develop the CNN and RNN models without processing and data extraction. Hyperparameter tuning is performed to ensure that the performance of each model is optimized. Grid search is used for performing hyperparameter tuning. To detect the combined defects, the study proposes two approaches. The first approach uses one model to detect settlement and dipped joint, and the second approach uses two models to detect settlement and dipped joint separately. The results show that the CNN models of both approaches provide the same accuracy of 99%, so one model is good enough to detect settlement and dipped joint. To evaluate the severity of the combined defects, the study applies classification and regression concepts. Classification is used to evaluate the severity by categorizing defects into light, medium, and severe classes, and regression is used to estimate the size of defects. From the study, the CNN model is suitable for evaluating dipped joint severity with an accuracy of 84% and mean absolute error (MAE) of 1.25 mm, and the RNN model is suitable for evaluating settlement severity with an accuracy of 99% and mean absolute error (MAE) of 1.58 mm.

scholarly journals Deep Learning for Laryngopharyngeal Reflux Diagnosis

2021 ◽  
Vol 11 (11) ◽  
pp. 4753
Author(s):  
Gen Ye ◽  
Chen Du ◽  
Tong Lin ◽  
Yan Yan ◽  
Jack Jiang
Keyword(s):  
Deep Learning ◽  
Speech Processing ◽  
Data Augmentation ◽  
Laryngopharyngeal Reflux ◽  
Ph Monitoring ◽  
Binary Classification ◽  
Classification Problem ◽  
Learning Approaches ◽  
Learning Techniques ◽  
Auc Value

(1) Background: Deep learning has become ubiquitous due to its impressive performance in various domains, such as varied as computer vision, natural language and speech processing, and game-playing. In this work, we investigated the performance of recent deep learning approaches on the laryngopharyngeal reflux (LPR) diagnosis task. (2) Methods: Our dataset is composed of 114 subjects with 37 pH-positive cases and 77 control cases. In contrast to prior work based on either reflux finding score (RFS) or pH monitoring, we directly take laryngoscope images as inputs to neural networks, as laryngoscopy is the most common and simple diagnostic method. The diagnosis task is formulated as a binary classification problem. We first tested a powerful backbone network that incorporates residual modules, attention mechanism and data augmentation. Furthermore, recent methods in transfer learning and few-shot learning were investigated. (3) Results: On our dataset, the performance is the best test classification accuracy is 73.4%, while the best AUC value is 76.2%. (4) Conclusions: This study demonstrates that deep learning techniques can be applied to classify LPR images automatically. Although the number of pH-positive images used for training is limited, deep network can still be capable of learning discriminant features with the advantage of technique.

Assessing the Accuracy of Fault Interpretation using Machine Learning Techniques when Risking Faults for CO2 Storage Site Assessment

2021 ◽  
pp. 1-55
Author(s):  
Emma A. H. Michie ◽  
Behzad Alaei ◽  
Alvar Braathen
Keyword(s):  
Deep Learning ◽  
New Technologies ◽  
Co2 Storage ◽  
Fault Reactivation ◽  
Machine Learning Techniques ◽  
Close Similarity ◽  
Storage Site ◽  
Site Assessment ◽  
Learning Techniques ◽  
Fault Interpretation

Generating an accurate model of the subsurface for the purpose of assessing the feasibility of a CO2 storage site is crucial. In particular, how faults are interpreted is likely to influence the predicted capacity and integrity of the reservoir; whether this is through identifying high risk areas along the fault, where fluid is likely to flow across the fault, or by assessing the reactivation potential of the fault with increased pressure, causing fluid to flow up the fault. New technologies allow users to interpret faults effortlessly, and in much quicker time, utilizing methods such as Deep Learning. These Deep Learning techniques use knowledge from Neural Networks to allow end-users to compute areas where faults are likely to occur. Although these new technologies may be attractive due to reduced interpretation time, it is important to understand the inherent uncertainties in their ability to predict accurate fault geometries. Here, we compare Deep Learning fault interpretation versus manual fault interpretation, and can see distinct differences to those faults where significant ambiguity exists due to poor seismic resolution at the fault; we observe an increased irregularity when Deep Learning methods are used over conventional manual interpretation. This can result in significant differences between the resulting analyses, such as fault reactivation potential. Conversely, we observe that well-imaged faults show a close similarity between the resulting fault surfaces when both Deep Learning and manual fault interpretation methods are employed, and hence we also observe a close similarity between any attributes and fault analyses made.

scholarly journals Sentiment Analysis using various Machine Learning and Deep Learning Techniques

2021 ◽  
pp. 385-394
Author(s):  
V Umarani ◽  
A Julian ◽  
J Deepa
Keyword(s):  
Machine Learning ◽  
Deep Learning ◽  
Sentiment Analysis ◽  
Naive Bayes ◽  
Naïve Bayes ◽  
Supervised Machine Learning ◽  
Machine Learning Techniques ◽  
Support Vector ◽  
Analysis Process ◽  
Learning Techniques

Sentiment analysis has gained a lot of attention from researchers in the last year because it has been widely applied to a variety of application domains such as business, government, education, sports, tourism, biomedicine, and telecommunication services. Sentiment analysis is an automated computational method for studying or evaluating sentiments, feelings, and emotions expressed as comments, feedbacks, or critiques. The sentiment analysis process can be automated using machine learning techniques, which analyses text patterns faster. The supervised machine learning technique is the most used mechanism for sentiment analysis. The proposed work discusses the flow of sentiment analysis process and investigates the common supervised machine learning techniques such as multinomial naive bayes, Bernoulli naive bayes, logistic regression, support vector machine, random forest, K-nearest neighbor, decision tree, and deep learning techniques such as Long Short-Term Memory and Convolution Neural Network. The work examines such learning methods using standard data set and the experimental results of sentiment analysis demonstrate the performance of various classifiers taken in terms of the precision, recall, F1-score, RoC-Curve, accuracy, running time and k fold cross validation and helps in appreciating the novelty of the several deep learning techniques and also giving the user an overview of choosing the right technique for their application.

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