scholarly journals Application of Machine Learning Models for Survival Prognosis in Breast Cancer Studies

Information ◽  
2019 ◽  
Vol 10 (3) ◽  
pp. 93 ◽  
Author(s):  
Iliyan Mihaylov ◽  
Maria Nisheva ◽  
Dimitar Vassilev
Keyword(s):  
Breast Cancer ◽  
Machine Learning ◽  
Survival Time ◽  
Clinical Feature ◽  
Support Vector ◽  
Learning Models ◽  
Survival Prognosis ◽  
Cancer Data ◽  
Cancer Studies ◽  
Machine Learning Models

The application of machine learning models for prediction and prognosis of disease development has become an irrevocable part of cancer studies aimed at improving the subsequent therapy and management of patients. The application of machine learning models for accurate prediction of survival time in breast cancer on the basis of clinical data is the main objective of the presented study. The paper discusses an approach to the problem in which the main factor used to predict survival time is the originally developed tumor-integrated clinical feature, which combines tumor stage, tumor size, and age at diagnosis. Two datasets from corresponding breast cancer studies are united by applying a data integration approach based on horizontal and vertical integration by using proper document-oriented and graph databases which show good performance and no data losses. Aside from data normalization and classification, the applied machine learning methods provide promising results in terms of accuracy of survival time prediction. The analysis of our experiments shows an advantage of the linear Support Vector Regression, Lasso regression, Kernel Ridge regression, K-neighborhood regression, and Decision Tree regression—these models achieve most accurate survival prognosis results. The cross-validation for accuracy demonstrates best performance of the same models on the studied breast cancer data. As a support for the proposed approach, a Python-based workflow has been developed and the plans for its further improvement are finally discussed in the paper.

Importance of Feature Selection and Data Visualization Towards Prediction of Breast Cancer

2019 ◽  
Vol 12 (4) ◽  
pp. 317-328 ◽  
Author(s):  
Rajalakshmi Krishnamurthi ◽  
Niyati Aggrawal ◽  
Lokendra Sharma ◽  
Diva Srivastava ◽  
Shivangi Sharma
Keyword(s):  
Breast Cancer ◽  
Machine Learning ◽  
Feature Selection ◽  
Support Vector ◽  
Data Visualisation ◽  
Learning Models ◽  
Cancer Data ◽  
Comparison Results ◽  
Tree Classifier ◽  
Machine Learning Models

Background: Breast cancer is one of the most common forms of cancers among women and the leading cause of death among them. Countries like United States, England and Canada have reported a high number of breast cancer patients every year and this number is continuously increasing due to detection at later stages. Hence, it is very important to create awareness among women and develop such algorithms which help to detect malignant cancer. Several research studies have been conducted to analyze the breast cancer data. Objective: This paper presents an effective method in predicting breast cancer and its stage and will also analyze the performance of different supervised learning algorithms such as Random Classifier, Chi2 Square test used in order to predict. The paper focuses on the three important aspects such as the feature selection, the corresponding data visualisation and finally making a prediction call on different machine learning models. Methods: The dataset used for this work is breast cancer Wisconsin data taken from UCI library. The dataset has been used to show the different 32 features which are all important and how it can be achieved using data visualisation. Secondly, after the feature selection, different machine learning models have been applied. Conclusion: The machine learning models involved are namely Support Vector Machine (SVM), KNearest Neighbour (KNN), Random Forest, Principal Component Analysis (PCA), Neural Network using Perceptron (NNP). This has been done to check which type of model is better under what conditions. At different stages several charts have been plotted and eliminated based on relative comparison. Results have shown that Random Tree classifier along with Chi2 Square proves to be an efficient one.

scholarly journals A novel framework for horizontal and vertical data integration in cancer studies with application to survival time prediction models

2019 ◽  
Vol 14 (1) ◽  
Author(s):  
Iliyan Mihaylov ◽  
Maciej Kańduła ◽  
Milko Krachunov ◽  
Dimitar Vassilev
Keyword(s):  
Machine Learning ◽  
Data Integration ◽  
Survival Time ◽  
Knowledge Sources ◽  
Learning Models ◽  
Cancer Data ◽  
Time Prediction ◽  
Prediction Of Survival ◽  
Cancer Studies ◽  
Machine Learning Models

Abstract Background Recently high-throughput technologies have been massively used alongside clinical tests to study various types of cancer. Data generated in such large-scale studies are heterogeneous, of different types and formats. With lack of effective integration strategies novel models are necessary for efficient and operative data integration, where both clinical and molecular information can be effectively joined for storage, access and ease of use. Such models, combined with machine learning methods for accurate prediction of survival time in cancer studies, can yield novel insights into disease development and lead to precise personalized therapies. Results We developed an approach for intelligent data integration of two cancer datasets (breast cancer and neuroblastoma) − provided in the CAMDA 2018 ‘Cancer Data Integration Challenge’, and compared models for prediction of survival time. We developed a novel semantic network-based data integration framework that utilizes NoSQL databases, where we combined clinical and expression profile data, using both raw data records and external knowledge sources. Utilizing the integrated data we introduced Tumor Integrated Clinical Feature (TICF) − a new feature for accurate prediction of patient survival time. Finally, we applied and validated several machine learning models for survival time prediction. Conclusion We developed a framework for semantic integration of clinical and omics data that can borrow information across multiple cancer studies. By linking data with external domain knowledge sources our approach facilitates enrichment of the studied data by discovery of internal relations. The proposed and validated machine learning models for survival time prediction yielded accurate results. Reviewers This article was reviewed by Eran Elhaik, Wenzhong Xiao and Carlos Loucera.

scholarly journals Monitoring the Foliar Nutrients Status of Mango Using Spectroscopy-Based Spectral Indices and PLSR-Combined Machine Learning Models

2021 ◽  
Vol 13 (4) ◽  
pp. 641
Author(s):  
Gopal Ramdas Mahajan ◽  
Bappa Das ◽  
Dayesh Murgaokar ◽  
Ittai Herrmann ◽  
Katja Berger ◽  
...  
Keyword(s):  
Machine Learning ◽  
Remote Sensing ◽  
Partial Least Square ◽  
Least Square ◽  
Partial Least Square Regression ◽  
Support Vector ◽  
Spectral Indices ◽  
Learning Models ◽  
Leaf Nutrients ◽  
Machine Learning Models

Conventional methods of plant nutrient estimation for nutrient management need a huge number of leaf or tissue samples and extensive chemical analysis, which is time-consuming and expensive. Remote sensing is a viable tool to estimate the plant’s nutritional status to determine the appropriate amounts of fertilizer inputs. The aim of the study was to use remote sensing to characterize the foliar nutrient status of mango through the development of spectral indices, multivariate analysis, chemometrics, and machine learning modeling of the spectral data. A spectral database within the 350–1050 nm wavelength range of the leaf samples and leaf nutrients were analyzed for the development of spectral indices and multivariate model development. The normalized difference and ratio spectral indices and multivariate models–partial least square regression (PLSR), principal component regression, and support vector regression (SVR) were ineffective in predicting any of the leaf nutrients. An approach of using PLSR-combined machine learning models was found to be the best to predict most of the nutrients. Based on the independent validation performance and summed ranks, the best performing models were cubist (R2 ≥ 0.91, the ratio of performance to deviation (RPD) ≥ 3.3, and the ratio of performance to interquartile distance (RPIQ) ≥ 3.71) for nitrogen, phosphorus, potassium, and zinc, SVR (R2 ≥ 0.88, RPD ≥ 2.73, RPIQ ≥ 3.31) for calcium, iron, copper, boron, and elastic net (R2 ≥ 0.95, RPD ≥ 4.47, RPIQ ≥ 6.11) for magnesium and sulfur. The results of the study revealed the potential of using hyperspectral remote sensing data for non-destructive estimation of mango leaf macro- and micro-nutrients. The developed approach is suggested to be employed within operational retrieval workflows for precision management of mango orchard nutrients.

scholarly journals Machine learning models to identify low adherence to influenza vaccination among Korean adults with cardiovascular disease

2021 ◽  
Vol 21 (1) ◽  
Author(s):  
Moojung Kim ◽  
Young Jae Kim ◽  
Sung Jin Park ◽  
Kwang Gi Kim ◽  
Pyung Chun Oh ◽  
...  
Keyword(s):  
Machine Learning ◽  
Cardiovascular Disease ◽  
Influenza Vaccination ◽  
Machine Learning Techniques ◽  
Gradient Boosting ◽  
Support Vector ◽  
Age Group ◽  
Learning Models ◽  
Extreme Gradient Boosting ◽  
Machine Learning Models

Abstract Background Annual influenza vaccination is an important public health measure to prevent influenza infections and is strongly recommended for cardiovascular disease (CVD) patients, especially in the current coronavirus disease 2019 (COVID-19) pandemic. The aim of this study is to develop a machine learning model to identify Korean adult CVD patients with low adherence to influenza vaccination Methods Adults with CVD (n = 815) from a nationally representative dataset of the Fifth Korea National Health and Nutrition Examination Survey (KNHANES V) were analyzed. Among these adults, 500 (61.4%) had answered "yes" to whether they had received seasonal influenza vaccinations in the past 12 months. The classification process was performed using the logistic regression (LR), random forest (RF), support vector machine (SVM), and extreme gradient boosting (XGB) machine learning techniques. Because the Ministry of Health and Welfare in Korea offers free influenza immunization for the elderly, separate models were developed for the < 65 and ≥ 65 age groups. Results The accuracy of machine learning models using 16 variables as predictors of low influenza vaccination adherence was compared; for the ≥ 65 age group, XGB (84.7%) and RF (84.7%) have the best accuracies, followed by LR (82.7%) and SVM (77.6%). For the < 65 age group, SVM has the best accuracy (68.4%), followed by RF (64.9%), LR (63.2%), and XGB (61.4%). Conclusions The machine leaning models show comparable performance in classifying adult CVD patients with low adherence to influenza vaccination.

414 Deep Neural Networks: A Survey Tool for Obstructive Sleep Apnea Prediction

SLEEP ◽  
2021 ◽  
Vol 44 (Supplement_2) ◽  
pp. A164-A164
Author(s):  
Pahnwat Taweesedt ◽  
JungYoon Kim ◽  
Jaehyun Park ◽  
Jangwoon Park ◽  
Munish Sharma ◽  
...  
Keyword(s):  
Machine Learning ◽  
Neural Networks ◽  
Obstructive Sleep Apnea ◽  
Sleep Apnea ◽  
Deep Neural Networks ◽  
Support Vector ◽  
Learning Models ◽  
Obstructive Sleep ◽  
Screening Questionnaires ◽  
Machine Learning Models

Abstract Introduction Obstructive sleep apnea (OSA) is a common sleep-related breathing disorder with an estimation of one billion people. Full-night polysomnography is considered the gold standard for OSA diagnosis. However, it is time-consuming, expensive and is not readily available in many parts of the world. Many screening questionnaires and scores have been proposed for OSA prediction with high sensitivity and low specificity. The present study is intended to develop models with various machine learning techniques to predict the severity of OSA by incorporating features from multiple questionnaires. Methods Subjects who underwent full-night polysomnography in Torr sleep center, Texas and completed 5 OSA screening questionnaires/scores were included. OSA was diagnosed by using Apnea-Hypopnea Index ≥ 5. We trained five different machine learning models including Deep Neural Networks with the scaled principal component analysis (DNN-PCA), Random Forest (RF), Adaptive Boosting classifier (ABC), and K-Nearest Neighbors classifier (KNC) and Support Vector Machine Classifier (SVMC). Training:Testing subject ratio of 65:35 was used. All features including demographic data, body measurement, snoring and sleepiness history were obtained from 5 OSA screening questionnaires/scores (STOP-BANG questionnaires, Berlin questionnaires, NoSAS score, NAMES score and No-Apnea score). Performance parametrics were used to compare between machine learning models. Results Of 180 subjects, 51.5 % of subjects were male with mean (SD) age of 53.6 (15.1). One hundred and nineteen subjects were diagnosed with OSA. Area Under the Receiver Operating Characteristic Curve (AUROC) of DNN-PCA, RF, ABC, KNC, SVMC, STOP-BANG questionnaire, Berlin questionnaire, NoSAS score, NAMES score, and No-Apnea score were 0.85, 0.68, 0.52, 0.74, 0.75, 0.61, 0.63, 0,61, 0.58 and 0,58 respectively. DNN-PCA showed the highest AUROC with sensitivity of 0.79, specificity of 0.67, positive-predictivity of 0.93, F1 score of 0.86, and accuracy of 0.77. Conclusion Our result showed that DNN-PCA outperforms OSA screening questionnaires, scores and other machine learning models. Support (if any):

scholarly journals QUBO formulations for training machine learning models

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Prasanna Date ◽  
Davis Arthur ◽  
Lauren Pusey-Nazzaro
Keyword(s):  
Machine Learning ◽  
Linear Regression ◽  
Large Scale ◽  
Support Vector ◽  
Quantum Computers ◽  
Np Hard ◽  
Learning Models ◽  
Moore’S Law ◽  
Moore's Law ◽  
Machine Learning Models

AbstractTraining machine learning models on classical computers is usually a time and compute intensive process. With Moore’s law nearing its inevitable end and an ever-increasing demand for large-scale data analysis using machine learning, we must leverage non-conventional computing paradigms like quantum computing to train machine learning models efficiently. Adiabatic quantum computers can approximately solve NP-hard problems, such as the quadratic unconstrained binary optimization (QUBO), faster than classical computers. Since many machine learning problems are also NP-hard, we believe adiabatic quantum computers might be instrumental in training machine learning models efficiently in the post Moore’s law era. In order to solve problems on adiabatic quantum computers, they must be formulated as QUBO problems, which is very challenging. In this paper, we formulate the training problems of three machine learning models—linear regression, support vector machine (SVM) and balanced k-means clustering—as QUBO problems, making them conducive to be trained on adiabatic quantum computers. We also analyze the computational complexities of our formulations and compare them to corresponding state-of-the-art classical approaches. We show that the time and space complexities of our formulations are better (in case of SVM and balanced k-means clustering) or equivalent (in case of linear regression) to their classical counterparts.

scholarly journals A Comparative Study of Machine Learning Models with Hyperparameter Optimization Algorithm for Mapping Mineral Prospectivity

Minerals ◽  
2021 ◽  
Vol 11 (2) ◽  
pp. 159
Author(s):  
Nan Lin ◽  
Yongliang Chen ◽  
Haiqi Liu ◽  
Hanlin Liu
Keyword(s):  
Machine Learning ◽  
Swarm Intelligence ◽  
Optimization Algorithm ◽  
Geochemical Data ◽  
Support Vector ◽  
Learning Models ◽  
Hyperparameter Optimization ◽  
Mineral Prospectivity ◽  
Swarm Intelligence Optimization ◽  
Machine Learning Models

Selecting internal hyperparameters, which can be set by the automatic search algorithm, is important to improve the generalization performance of machine learning models. In this study, the geological, remote sensing and geochemical data of the Lalingzaohuo area in Qinghai province were researched. A multi-source metallogenic information spatial data set was constructed by calculating the Youden index for selecting potential evidence layers. The model for mapping mineral prospectivity of the study area was established by combining two swarm intelligence optimization algorithms, namely the bat algorithm (BA) and the firefly algorithm (FA), with different machine learning models. The receiver operating characteristic (ROC) and prediction-area (P-A) curves were used for performance evaluation and showed that the two algorithms had an obvious optimization effect. The BA and FA differentiated in improving multilayer perceptron (MLP), AdaBoost and one-class support vector machine (OCSVM) models; thus, there was no optimization algorithm that was consistently superior to the other. However, the accuracy of the machine learning models was significantly enhanced after optimizing the hyperparameters. The area under curve (AUC) values of the ROC curve of the optimized machine learning models were all higher than 0.8, indicating that the hyperparameter optimization calculation was effective. In terms of individual model improvement, the accuracy of the FA-AdaBoost model was improved the most significantly, with the AUC value increasing from 0.8173 to 0.9597 and the prediction/area (P/A) value increasing from 3.156 to 10.765, where the mineral targets predicted by the model occupied 8.63% of the study area and contained 92.86% of the known mineral deposits. The targets predicted by the improved machine learning models are consistent with the metallogenic geological characteristics, indicating that the swarm intelligence optimization algorithm combined with the machine learning model is an efficient method for mineral prospectivity mapping.

Machine Learning Models for Finger Bend Evaluation using Implemented Low cost Flex Sensor

2021 ◽  
Vol 9 (VI) ◽  
pp. 3605-3611
Author(s):  
Pratyush Kaware
Keyword(s):  
Machine Learning ◽  
Support Vector Machine ◽  
Low Cost ◽  
Learning Algorithms ◽  
Cost Effective ◽  
Machine Learning Algorithms ◽  
Support Vector ◽  
Learning Models ◽  
Machine Learning Models

In this paper a cost-effective sensor has been implemented to read finger bend signals, by attaching the sensor to a finger, so as to classify them based on the degree of bent as well as the joint about which the finger was being bent. This was done by testing with various machine learning algorithms to get the most accurate and consistent classifier. Finally, we found that Support Vector Machine was the best algorithm suited to classify our data, using we were able predict live state of a finger, i.e., the degree of bent and the joints involved. The live voltage values from the sensor were transmitted using a NodeMCU micro-controller which were converted to digital and uploaded on a database for analysis.

scholarly journals Machine Learning Models for Sarcopenia Identification Based on Radiomic Features of Muscles in Computed Tomography

2021 ◽  
Vol 18 (16) ◽  
pp. 8710
Author(s):  
Young Jae Kim
Keyword(s):  
Machine Learning ◽  
Computed Tomography ◽  
Ct Images ◽  
Erector Spinae ◽  
Support Vector ◽  
Gray Level ◽  
Learning Models ◽  
Extreme Gradient Boosting ◽  
Nsclc Patients ◽  
Machine Learning Models

The diagnosis of sarcopenia requires accurate muscle quantification. As an alternative to manual muscle mass measurement through computed tomography (CT), artificial intelligence can be leveraged for the automation of these measurements. Although generally difficult to identify with the naked eye, the radiomic features in CT images are informative. In this study, the radiomic features were extracted from L3 CT images of the entire muscle area and partial areas of the erector spinae collected from non-small cell lung carcinoma (NSCLC) patients. The first-order statistics and gray-level co-occurrence, gray-level size zone, gray-level run length, neighboring gray-tone difference, and gray-level dependence matrices were the radiomic features analyzed. The identification performances of the following machine learning models were evaluated: logistic regression, support vector machine (SVM), random forest, and extreme gradient boosting (XGB). Sex, coarseness, skewness, and cluster prominence were selected as the relevant features effectively identifying sarcopenia. The XGB model demonstrated the best performance for the entire muscle, whereas the SVM was the worst-performing model. Overall, the models demonstrated improved performance for the entire muscle compared to the erector spinae. Although further validation is required, the radiomic features presented here could become reliable indicators for quantifying the phenomena observed in the muscles of NSCLC patients, thus facilitating the diagnosis of sarcopenia.

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