Incorporating Machine Learning into Established Bioinformatics Frameworks

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.

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Breast Cancer Prediction Using Deep Learning and Machine Learning Techniques

SSRN Electronic Journal ◽

10.2139/ssrn.3558786 ◽

2020 ◽

Cited By ~ 1

Author(s):

MONIKA TIWARI ◽

Rashi Bharuka ◽

Praditi Shah ◽

Reena Lokare

Keyword(s):

Breast Cancer ◽

Machine Learning ◽

Deep Learning ◽

Machine Learning Techniques ◽

Cancer Prediction ◽

Learning Techniques

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Detection and Severity Evaluation of Combined Rail Defects Using Deep Learning

Vibration ◽

10.3390/vibration4020022 ◽

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.

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Sentiment Analysis using various Machine Learning and Deep Learning Techniques

Journal of the Nigerian Society of Physical Sciences ◽

10.46481/jnsps.2021.308 ◽

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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Deep Learning Assisted Neonatal Cry Classification via Support Vector Machine Models

Frontiers in Public Health ◽

10.3389/fpubh.2021.670352 ◽

2021 ◽

Vol 9 ◽

Author(s):

Ashwini K ◽

P. M. Durai Raj Vincent ◽

Kathiravan Srinivasan ◽

Chuan-Yu Chang

Keyword(s):

Neural Network ◽

Machine Learning ◽

Support Vector Machine ◽

Feature Extraction ◽

Deep Learning ◽

Convolutional Neural Network ◽

Support Vector ◽

Svm Classifier ◽

Infant Cry ◽

Learning Techniques

Neonatal infants communicate with us through cries. The infant cry signals have distinct patterns depending on the purpose of the cries. Preprocessing, feature extraction, and feature selection need expert attention and take much effort in audio signals in recent days. In deep learning techniques, it automatically extracts and selects the most important features. For this, it requires an enormous amount of data for effective classification. This work mainly discriminates the neonatal cries into pain, hunger, and sleepiness. The neonatal cry auditory signals are transformed into a spectrogram image by utilizing the short-time Fourier transform (STFT) technique. The deep convolutional neural network (DCNN) technique takes the spectrogram images for input. The features are obtained from the convolutional neural network and are passed to the support vector machine (SVM) classifier. Machine learning technique classifies neonatal cries. This work combines the advantages of machine learning and deep learning techniques to get the best results even with a moderate number of data samples. The experimental result shows that CNN-based feature extraction and SVM classifier provides promising results. While comparing the SVM-based kernel techniques, namely radial basis function (RBF), linear and polynomial, it is found that SVM-RBF provides the highest accuracy of kernel-based infant cry classification system provides 88.89% accuracy.

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