scholarly journals Machine learning to predict microbial community functions: An analysis of dissolved organic carbon from litter decomposition

2019 ◽  
Author(s):  
Jaron Thompson ◽  
Renee Johansen ◽  
John Dunbar ◽  
Brian Munsky
Keyword(s):  
Neural Network ◽  
Machine Learning ◽  
Feature Selection ◽  
Random Forest ◽  
Organic Carbon ◽  
Machine Learning Techniques ◽  
Indicator Species Analysis ◽  
Learning Techniques ◽  
Species Analysis ◽  
Microbiome Data

AbstractMicrobial communities are ubiquitous and often influence macroscopic properties of the ecosystems they inhabit. However, deciphering the functional relationship between specific microbes and ecosystem properties is an ongoing challenge owing to the complexity of the communities. This challenge can be addressed, in part, by integrating the advances in DNA sequencing technology with computational approaches like machine learning. Although machine learning techniques have been applied to microbiome data, use of these techniques remains rare, and user-friendly platforms to implement such techniques are not widely available. We developed a tool that implements neural network and random forest models to perform regression and feature selection tasks on microbiome data. In this study, we applied the tool to analyze soil microbiome (16S rRNA gene profiles) and dissolved organic carbon (DOC) data from a 44-day plant litter decomposition experiment. The microbiome data includes 1709 total bacterial operational taxonomic units (OTU) from 300+ microcosms. Regression analysis of predicted and actual DOC for a held-out test set of 51 samples yield Pearson’s correlation coefficients of .636 and .676 for neural network and random forest approaches, respectively. Important taxa identified by the machine learning techniques are compared to results from a standard tool (indicator species analysis) widely used by microbial ecologists. Of 1709 bacterial taxa, indicator species analysis identified 285 taxa as significant determinants of DOC concentration. Of the top 285 ranked features determined by machine learning methods, a subset of 86 taxa are common to all feature selection techniques. Using this subset of features, prediction results for random permutations of the data set are at least equally accurate compared to predictions determined using the entire feature set. Our results suggest that integration of multiple methods can aid identification of a robust subset of taxa within complex communities that may drive specific functional outcomes of interest.

Differentiating Thrombotic Microangiopathies Based on Laboratory Tests Other Than ADAMTS13 Using Machine Learning Technology

Blood ◽  
2016 ◽  
Vol 128 (22) ◽  
pp. 3749-3749
Author(s):  
Youngil Koh ◽  
SuYeon Lee ◽  
Hong-Seok Yun ◽  
Sung-Soo Yoon ◽  
Inho Kim ◽  
...  
Keyword(s):  
Neural Network ◽  
Machine Learning ◽  
Random Forest ◽  
Decision Tree ◽  
Correlation Coefficient ◽  
Machine Learning Techniques ◽  
Learning Technology ◽  
Thrombotic Microangiopathies ◽  
Random Forest Method ◽  
Learning Techniques

Abstract Introduction: ADAMTS13 activity level is crucial for differentiating thrombotic microangiopathies. However, ADAMTS13 testing is not readily available at site in many parts of the world. Hence, we developed an innovative algorithm that allow differentiation of thrombotic thrombocytopenic purpura (TTP) from other TMA's based on laboratory results other than ADAMTS13 using machine learning. Methods: Two hundred- eight adult patients with either TTP (N=64) or TMA other than TTP (N=144) (ADAMTS13 cutoff level of 10%) were classified using three machine learning techniques (decision tree, random forest, and neural network), using a set of easily measured 19 clinical variables such as fever, Hb, ALT and so on. Basically, each clinical variable is not correlated with TTP (Absolute values of correlation coefficients are lower than 0.5), so we applied machine learning algorithms. First, we divided patient data into three parts, train, test and validation set. And then, we applied these 3 machine learning techniques, decision tree, random forest and neural network. Principal component analysis was also performed. Results: As a single variable, platelet count, BUN and total bilirubin were the most important three variables that are predictive of differentiating TTP from other TMA's with accuracy of 82%. Random forest method increased accuracy to 85% and precision, and recall statistic is 0.828, and 0.832, respectively. Neural network did not do better without optimization than random forest method. Conclusion: Machine learning technology seems promising in differentiating TTP from other TMA's if ADAMTS13 value is not available. These algorithms could support the physician in tailoring the management of TMA. Correlation coefficient in our study Correlation coefficient in our study Scheme of Random Forest method used in our study Scheme of Random Forest method used in our study Disclosures Lee: SamsungSDS: Employment. Yun:Samsung SDS: Employment.

scholarly journals Prediction of Air-Conditioning Energy Consumption in R&D Building Using Multiple Machine Learning Techniques

Energies ◽  
2020 ◽  
Vol 13 (7) ◽  
pp. 1847
Author(s):  
Jun-Mao Liao ◽  
Ming-Jui Chang ◽  
Luh-Maan Chang
Keyword(s):  
Neural Network ◽  
Machine Learning ◽  
Energy Consumption ◽  
Random Forest ◽  
Energy Conservation ◽  
Air Conditioning ◽  
Machine Learning Techniques ◽  
Support Vector ◽  
Generic Model ◽  
Learning Techniques

With the global increase in demand for energy, energy conservation of research and development buildings has become of primary importance for building owners. Knowledge based on the patterns in energy consumption of previous years could be used to predict the near-future energy usage of buildings, to optimize and facilitate more effective energy consumption. Hence, this research aimed to develop a generic model for predicting energy consumption. Air-conditioning was used to exemplify the generic model for electricity consumption, as it is the process that often consumes the most energy in a public building. The purpose of this paper is to present this model and the related findings. After causative factors were determined, the methods of linear regression and various machine learning techniques—including the earlier machine learning techniques of support vector machine, random forest, and multilayer perceptron, and the later machine learning techniques of deep neural network, recurrent neural network, long short-term memory, and gated recurrent unit—were applied for prediction. Among them, the prediction of random forest resulted in an R2 of 88% ahead of the first month and 81% ahead of the third month. These experimental results demonstrate that the prediction model is reliable and significantly accurate. Building owners could further enrich the model for energy conservation and management.

Crop Quality Prediction Using Ml And Neural Networks

2021 ◽  
Vol 10 (02) ◽  
pp. 07-11
Author(s):  
Kanakaveti Narasimha Dheeraj ◽  
Goutham. R. J ◽  
Arthi. L
Keyword(s):  
Neural Network ◽  
Machine Learning ◽  
Neural Networks ◽  
Random Forest ◽  
Machine Learning Techniques ◽  
Quality Prediction ◽  
Random Forest Regression ◽  
Power Efficient ◽  
Learning Techniques ◽  
Better Than

Agriculture is said to be the backbone of the economy. Farmers toil hard with different kinds of crops to make good and healthy food for the country. There are more existing systems but uses outdated machine-learning techniques based on RNN( Recurrent neural network) which makes the process slower and more time-consuming. Here We are proposing a new CNN(Convolutional neural network ) based system which is fast and gives accurate results within seconds. CNN is power-efficient and is more suitable for real-time implementation. In this project, we use CNN algorithms which is very much better than the RNN algorithms used in the existing system.More parameters will be taken for the consideration of prediction in the proposed system. And we use Random Forest Regression, Multiple Linear Regression

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 Learning from Imbalanced Educational Data Using Ensemble Machine Learning Algorithms

Webology ◽  
2021 ◽  
Vol 18 (Special Issue 01) ◽  
pp. 183-195
Author(s):  
Thingbaijam Lenin ◽  
N. Chandrasekaran
Keyword(s):  
Machine Learning ◽  
Random Forest ◽  
Missing Values ◽  
Machine Learning Techniques ◽  
Gradient Boosting ◽  
Adaptive Boosting ◽  
Stochastic Gradient Boosting ◽  
Ensemble Machine Learning ◽  
Learning Techniques ◽  
Student’S Performance

Student’s academic performance is one of the most important parameters for evaluating the standard of any institute. It has become a paramount importance for any institute to identify the student at risk of underperforming or failing or even drop out from the course. Machine Learning techniques may be used to develop a model for predicting student’s performance as early as at the time of admission. The task however is challenging as the educational data required to explore for modelling are usually imbalanced. We explore ensemble machine learning techniques namely bagging algorithm like random forest (rf) and boosting algorithms like adaptive boosting (adaboost), stochastic gradient boosting (gbm), extreme gradient boosting (xgbTree) in an attempt to develop a model for predicting the student’s performance of a private university at Meghalaya using three categories of data namely demographic, prior academic record, personality. The collected data are found to be highly imbalanced and also consists of missing values. We employ k-nearest neighbor (knn) data imputation technique to tackle the missing values. The models are developed on the imputed data with 10 fold cross validation technique and are evaluated using precision, specificity, recall, kappa metrics. As the data are imbalanced, we avoid using accuracy as the metrics of evaluating the model and instead use balanced accuracy and F-score. We compare the ensemble technique with single classifier C4.5. The best result is provided by random forest and adaboost with F-score of 66.67%, balanced accuracy of 75%, and accuracy of 96.94%.

scholarly journals Heart Disease Prediction using Machine Learning Techniques

2021 ◽  
pp. 42-47
Author(s):  
Ramesh Ponnala ◽  
K. Sai Sowjanya
Keyword(s):  
Machine Learning ◽  
Heart Disease ◽  
Random Forest ◽  
Linear Model ◽  
Machine Learning Techniques ◽  
Disease Prediction ◽  
Huge Amount ◽  
Healthcare Enterprise ◽  
Learning Techniques ◽  
Accuracy Level

Prediction of Cardiovascular ailment is an important task inside the vicinity of clinical facts evaluation. Machine learning knowledge of has been proven to be effective in helping in making selections and predicting from the huge amount of facts produced by using the healthcare enterprise. on this paper, we advocate a unique technique that pursuits via finding good sized functions by means of applying ML strategies ensuing in improving the accuracy inside the prediction of heart ailment. The severity of the heart disease is classified primarily based on diverse methods like KNN, choice timber and so on. The prediction version is added with special combos of capabilities and several known classification techniques. We produce a stronger performance level with an accuracy level of a 100% through the prediction version for heart ailment with the Hybrid Random forest area with a linear model (HRFLM).

scholarly journals Evolutionary Machine Learning for Classification with Incomplete Data

2021 ◽  
Author(s):  
◽  
Cao Truong Tran
Keyword(s):  
Machine Learning ◽  
Feature Selection ◽  
Genetic Programming ◽  
Incomplete Data ◽  
Missing Values ◽  
Machine Learning Techniques ◽  
Feature Construction ◽  
Classification Algorithms ◽  
Learning Techniques ◽  
Effectiveness And Efficiency

<p>Classification is a major task in machine learning and data mining. Many real-world datasets suffer from the unavoidable issue of missing values. Classification with incomplete data has to be carefully handled because inadequate treatment of missing values will cause large classification errors.    Existing most researchers working on classification with incomplete data focused on improving the effectiveness, but did not adequately address the issue of the efficiency of applying the classifiers to classify unseen instances, which is much more important than the act of creating classifiers. A common approach to classification with incomplete data is to use imputation methods to replace missing values with plausible values before building classifiers and classifying unseen instances. This approach provides complete data which can be then used by any classification algorithm, but sophisticated imputation methods are usually computationally intensive, especially for the application process of classification. Another approach to classification with incomplete data is to build a classifier that can directly work with missing values. This approach does not require time for estimating missing values, but it often generates inaccurate and complex classifiers when faced with numerous missing values. A recent approach to classification with incomplete data which also avoids estimating missing values is to build a set of classifiers which then is used to select applicable classifiers for classifying unseen instances. However, this approach is also often inaccurate and takes a long time to find applicable classifiers when faced with numerous missing values.   The overall goal of the thesis is to simultaneously improve the effectiveness and efficiency of classification with incomplete data by using evolutionary machine learning techniques for feature selection, clustering, ensemble learning, feature construction and constructing classifiers.   The thesis develops approaches for improving imputation for classification with incomplete data by integrating clustering and feature selection with imputation. The approaches improve both the effectiveness and the efficiency of using imputation for classification with incomplete data.   The thesis develops wrapper-based feature selection methods to improve input space for classification algorithms that are able to work directly with incomplete data. The methods not only improve the classification accuracy, but also reduce the complexity of classifiers able to work directly with incomplete data.   The thesis develops a feature construction method to improve input space for classification algorithms with incomplete data by proposing interval genetic programming-genetic programming with a set of interval functions. The method improves the classification accuracy and reduces the complexity of classifiers.   The thesis develops an ensemble approach to classification with incomplete data by integrating imputation, feature selection, and ensemble learning. The results show that the approach is more accurate, and faster than previous common methods for classification with incomplete data.   The thesis develops interval genetic programming to directly evolve classifiers for incomplete data. The results show that classifiers generated by interval genetic programming can be more effective and efficient than classifiers generated the combination of imputation and traditional genetic programming. Interval genetic programming is also more effective than common classification algorithms able to work directly with incomplete data.    In summary, the thesis develops a range of approaches for simultaneously improving the effectiveness and efficiency of classification with incomplete data by using a range of evolutionary machine learning techniques.</p>

scholarly journals Estimating Forest Carbon Fluxes Using Machine Learning Techniques Based on Eddy Covariance Measurements

2018 ◽  
Vol 10 (1) ◽  
pp. 203 ◽  
Author(s):  
Xianming Dou ◽  
Yongguo Yang ◽  
Jinhui Luo
Keyword(s):  
Neural Network ◽  
Machine Learning ◽  
Eddy Covariance ◽  
Carbon Flux ◽  
Carbon Fluxes ◽  
Forest Carbon ◽  
Machine Learning Techniques ◽  
Support Vector ◽  
Inference System ◽  
Learning Techniques

Approximating the complex nonlinear relationships that dominate the exchange of carbon dioxide fluxes between the biosphere and atmosphere is fundamentally important for addressing the issue of climate change. The progress of machine learning techniques has offered a number of useful tools for the scientific community aiming to gain new insights into the temporal and spatial variation of different carbon fluxes in terrestrial ecosystems. In this study, adaptive neuro-fuzzy inference system (ANFIS) and generalized regression neural network (GRNN) models were developed to predict the daily carbon fluxes in three boreal forest ecosystems based on eddy covariance (EC) measurements. Moreover, a comparison was made between the modeled values derived from these models and those of traditional artificial neural network (ANN) and support vector machine (SVM) models. These models were also compared with multiple linear regression (MLR). Several statistical indicators, including coefficient of determination (R2), Nash-Sutcliffe efficiency (NSE), bias error (Bias) and root mean square error (RMSE) were utilized to evaluate the performance of the applied models. The results showed that the developed machine learning models were able to account for the most variance in the carbon fluxes at both daily and hourly time scales in the three stands and they consistently and substantially outperformed the MLR model for both daily and hourly carbon flux estimates. It was demonstrated that the ANFIS and ANN models provided similar estimates in the testing period with an approximate value of R2 = 0.93, NSE = 0.91, Bias = 0.11 g C m−2 day−1 and RMSE = 1.04 g C m−2 day−1 for daily gross primary productivity, 0.94, 0.82, 0.24 g C m−2 day−1 and 0.72 g C m−2 day−1 for daily ecosystem respiration, and 0.79, 0.75, 0.14 g C m−2 day−1 and 0.89 g C m−2 day−1 for daily net ecosystem exchange, and slightly outperformed the GRNN and SVM models. In practical terms, however, the newly developed models (ANFIS and GRNN) are more robust and flexible, and have less parameters needed for selection and optimization in comparison with traditional ANN and SVM models. Consequently, they can be used as valuable tools to estimate forest carbon fluxes and fill the missing carbon flux data during the long-term EC measurements.

scholarly journals Comparative Analysis on Machine Learning and Deep Learning to Predict Post-Induction Hypotension

Sensors ◽  
2020 ◽  
Vol 20 (16) ◽  
pp. 4575 ◽  
Author(s):  
Jihyun Lee ◽  
Jiyoung Woo ◽  
Ah Reum Kang ◽  
Young-Seob Jeong ◽  
Woohyun Jung ◽  
...  
Keyword(s):  
Neural Network ◽  
Machine Learning ◽  
Feature Selection ◽  
Deep Learning ◽  
Random Forest ◽  
Tracheal Intubation ◽  
Feature Engineering ◽  
Learning Models ◽  
Raw Data ◽  
Vital Records

Hypotensive events in the initial stage of anesthesia can cause serious complications in the patients after surgery, which could be fatal. In this study, we intended to predict hypotension after tracheal intubation using machine learning and deep learning techniques after intubation one minute in advance. Meta learning models, such as random forest, extreme gradient boosting (Xgboost), and deep learning models, especially the convolutional neural network (CNN) model and the deep neural network (DNN), were trained to predict hypotension occurring between tracheal intubation and incision, using data from four minutes to one minute before tracheal intubation. Vital records and electronic health records (EHR) for 282 of 319 patients who underwent laparoscopic cholecystectomy from October 2018 to July 2019 were collected. Among the 282 patients, 151 developed post-induction hypotension. Our experiments had two scenarios: using raw vital records and feature engineering on vital records. The experiments on raw data showed that CNN had the best accuracy of 72.63%, followed by random forest (70.32%) and Xgboost (64.6%). The experiments on feature engineering showed that random forest combined with feature selection had the best accuracy of 74.89%, while CNN had a lower accuracy of 68.95% than that of the experiment on raw data. Our study is an extension of previous studies to detect hypotension before intubation with a one-minute advance. To improve accuracy, we built a model using state-of-art algorithms. We found that CNN had a good performance, but that random forest had a better performance when combined with feature selection. In addition, we found that the examination period (data period) is also important.

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