scholarly journals An application of machine learning to assist medication order review by pharmacists in a health care center

2019 ◽  
Author(s):  
Maxime Thibault ◽  
Denis Lebel
Keyword(s):  
Machine Learning ◽  
Neonatal Intensive Care ◽  
Care Center ◽  
Variable Order ◽  
Medication Order ◽  
Training Set ◽  
Test Set ◽  
Health Care Center ◽  
Clinical Benefits ◽  
Fold Cross Validation

AbstractThe objective of this study was to determine if it is feasible to use machine learning to evaluate how a medication order is contextually appropriate for a patient, in order to assist order review by pharmacists. A neural network was constructed using as input the sequence of word2vec embeddings of the 30 previous orders, as well as the currently active medications, pharmacological classes and ordering department, to predict the next order. The model was trained with data from 2013 to 2017, optimized using 5-fold cross-validation, and tested on orders from 2018. A survey was developed to obtain pharmacist ratings on a sample of 20 orders, which were compared with predictions. The training set included 1 022 272 orders. The test set included 95 310 orders. Baseline training set top 1, top 10 and top 30 accuracy using a dummy classifier were respectively 4.5%, 23.6% and 44.1%. Final test set accuracies were, respectively, 44.4%, 69.9% and 80.4%. Populations in which the model performed the best were obstetrics and gynecology patients and newborn babies (either in or out of neonatal intensive care). Pharmacists agreed poorly on their ratings of sampled orders with a Fleiss kappa of 0.283. The breakdown of metrics by population showed better performance in patients following less variable order patterns, indicating potential usefulness in triaging routine orders to less extensive pharmacist review. We conclude that machine learning has potential for helping pharmacists review medication orders. Future studies should aim at evaluating the clinical benefits of using such a model in practice.

scholarly journals Sistem Informasi Posyandu Ibu Hamil dengan Penerapan Klasifikasi Resiko Kehamilan Menggunakan Metode Naïve Bayes

2018 ◽  
Vol 6 (1) ◽  
pp. 1
Author(s):  
Qomariyatul Hasanah ◽  
Anang Andrianto ◽  
Muhammad Arief Hidayat
Keyword(s):  
Cross Validation ◽  
Naive Bayes ◽  
Naïve Bayes ◽  
Training Set ◽  
Test Set ◽  
Fold Cross Validation

Sistem informasi posyandu ibu hamil dapat mengelola data kesehatan ibu hamil yang berkaitan dengan faktor resiko kehamilan. Faktor resiko kehamilan berdasarkan ketentuan Kartu Skor Poedji Rochyati (KSPR) digunakan bidan untuk menentukan resiko kehamilan dengan memberikan skor pada masing-masing parameter. KSPR memiliki kelemahan tidak dapat memberikan skor pada parameter yang belum pasti sehingga jika belum diketahui dengan pasti maka dianggap tidak terjadi. Konsep membaca pola data yang diadopsi dari teknik datamining menggunakan metode klasifikasi naive bayes dapat menjadi alternatif untuk kelemahan KSPR tersebut yaitu dengan mengklasifikasikan resiko kehamilan. Metode naïve bayes menghitung probabilitas parameter tertentu berdasarkan data pada periode sebelumnya yang telah ditentukan sebagai data training, berdasarkan hasil perhitungan tersebut dapat diketahui resiko kehamilan secara tepat sesuai parameter yang telah diketahui. Metode naïve bayes dipilih karena memiliki tingkat akurasi yang cukup tinggi daripada metode klasifikasi lainnya. Sistem informasi ini dibangun berbasis website agar dapat diakses secara mudah oleh beberapa posyandu yang berbeda tempat. Sistem dibangun mengadopsi dari model Waterfall. Sistem informasi posyandu ibu hamil dirancang dan dibangun dengan tiga (3) hak akses yaitu admin, bidan dan kader dengan masing-masing fitur yang dapat memudahkan penggunanya. Hasil dari penelitian ini adalah sistem informasi posyandu ibu hamil dengan penerapan klasifikasi resiko kehamilan menggunakan metode naïve bayes, dengan tingkat akurasi ketika menggunakan 17 atribut didapatkan 53.913%, 19 atribut didapatkan 54.348%, , 21 atribut didapatkan 54.783%, dan 22 atribut didapatkan 56.957%. Tingkat akurasi klasifikasi diperoleh menggunakan metode pengujian menggunakan Ten-Fold Cross Validation dimana training set dibagi menjadi 10 kelompok, jika kelompok 1 dijadikan test set maka kelompok 2 hingga 10 menjadi training set. Kata Kunci: Posyandu, Resiko Kehamilan, Waterfall, Datamining, Klasifikasi, Naïve bayes

scholarly journals Exploratory analysis on prediction of loan privilege for customers using random forest

2018 ◽  
Vol 7 (2.21) ◽  
pp. 339 ◽  
Author(s):  
K Ulaga Priya ◽  
S Pushpa ◽  
K Kalaivani ◽  
A Sartiha
Keyword(s):  
Machine Learning ◽  
Random Forest ◽  
Data Model ◽  
Model Evaluation ◽  
Banking Industry ◽  
Performance Parameters ◽  
Training Set ◽  
Test Set ◽  
Learning Technique ◽  
Analytical Processing

In Banking Industry loan Processing is a tedious task in identifying the default customers. Manual prediction of default customers might turn into a bad loan in future. Banks possess huge volume of behavioral data from which they are unable to make a judgement about prediction of loan defaulters. Modern techniques like Machine Learning will help to do analytical processing using Supervised Learning and Unsupervised Learning Technique. A data model for predicting default customers using Random forest Technique has been proposed. Data model Evaluation is done on training set and based on the performance parameters final prediction is done on the Test set. This is an evident that Random Forest technique will help the bank to predict the loan Defaulters with utmost accuracy.  

scholarly journals Evaluation and Identification of the Neuroprotective Compounds of Xiaoxuming Decoction by Machine Learning: A Novel Mode to Explore the Combination Rules in Traditional Chinese Medicine Prescription

2019 ◽  
Vol 2019 ◽  
pp. 1-14
Author(s):  
Shilun Yang ◽  
Yanjia Shen ◽  
Wendan Lu ◽  
Yinglin Yang ◽  
Haigang Wang ◽  
...  
Keyword(s):  
Machine Learning ◽  
Chinese Medicine ◽  
Traditional Chinese Medicine ◽  
Cross Validation ◽  
Bayesian Models ◽  
Machine Learning Algorithms ◽  
Therapeutic Effects ◽  
Test Set ◽  
Screening Experiments ◽  
Fold Cross Validation

Xiaoxuming decoction (XXMD), a classic traditional Chinese medicine (TCM) prescription, has been used as a therapeutic in the treatment of stroke in clinical practice for over 1200 years. However, the pharmacological mechanisms of XXMD have not yet been elucidated. The purpose of this study was to develop neuroprotective models for identifying neuroprotective compounds in XXMD against hypoxia-induced and H2O2-induced brain cell damage. In this study, a phenotype-based classification method was designed by machine learning to identify neuroprotective compounds and to clarify the compatibility of XXMD components. Four different single classifiers (AB, kNN, CT, and RF) and molecular fingerprint descriptors were used to construct stacked naïve Bayesian models. Among them, the RF algorithm had a better performance with an average MCC value of 0.725±0.014 and 0.774±0.042 from 5-fold cross-validation and test set, respectively. The probability values calculated by four models were then integrated into a stacked Bayesian model. In total, two optimal models, s-NB-1-LPFP6 and s-NB-2-LPFP6, were obtained. The two validated optimal models revealed Matthews correlation coefficients (MCC) of 0.968 and 0.993 for 5-fold cross-validation and of 0.874 and 0.959 for the test set, respectively. Furthermore, the two models were used for virtual screening experiments to identify neuroprotective compounds in XXMD. Ten representative compounds with potential therapeutic effects against the two phenotypes were selected for further cell-based assays. Among the selected compounds, two compounds significantly inhibited H2O2-induced and Na2S2O4-induced neurotoxicity simultaneously. Together, our findings suggested that machine learning algorithms such as combination Bayesian models were feasible to predict neuroprotective compounds and to preliminarily demonstrate the pharmacological mechanisms of TCM.

scholarly journals North American Hardwoods Identification Using Machine-Learning

Forests ◽  
2020 ◽  
Vol 11 (3) ◽  
pp. 298 ◽  
Author(s):  
Dercilio Junior Verly Lopes ◽  
Greg W. Burgreen ◽  
Edward D. Entsminger
Keyword(s):  
Machine Learning ◽  
North American ◽  
Mobile Application ◽  
Cross Validation ◽  
Data Augmentation ◽  
Technical Note ◽  
Machine Learning Method ◽  
Training Set ◽  
Hardwood Species ◽  
Fold Cross Validation

This technical note determines the feasibility of using an InceptionV4_ResNetV2 convolutional neural network (CNN) to correctly identify hardwood species from macroscopic images. The method is composed of a commodity smartphone fitted with a 14× macro lens for photography. The end-grains of ten different North American hardwood species were photographed to create a dataset of 1869 images. The stratified 5-fold cross-validation machine-learning method was used, in which the number of testing samples varied from 341 to 342. Data augmentation was performed on-the-fly for each training set by rotating, zooming, and flipping images. It was found that the CNN could correctly identify hardwood species based on macroscopic images of its end-grain with an adjusted accuracy of 92.60%. With the current growing of machine-learning field, this model can then be readily deployed in a mobile application for field wood identification.

scholarly journals Evaluation of Tree-Based Ensemble Machine Learning Models in Predicting Stock Price Direction of Movement

Information ◽  
2020 ◽  
Vol 11 (6) ◽  
pp. 332
Author(s):  
Ernest Kwame Ampomah ◽  
Zhiguang Qin ◽  
Gabriel Nyame
Keyword(s):  
Machine Learning ◽  
Stock Market ◽  
Stock Price ◽  
Superior Performance ◽  
Operating Characteristics ◽  
Training Set ◽  
Data Set ◽  
Test Set ◽  
Ensemble Machine Learning ◽  
Better Than

Forecasting the direction and trend of stock price is an important task which helps investors to make prudent financial decisions in the stock market. Investment in the stock market has a big risk associated with it. Minimizing prediction error reduces the investment risk. Machine learning (ML) models typically perform better than statistical and econometric models. Also, ensemble ML models have been shown in the literature to be able to produce superior performance than single ML models. In this work, we compare the effectiveness of tree-based ensemble ML models (Random Forest (RF), XGBoost Classifier (XG), Bagging Classifier (BC), AdaBoost Classifier (Ada), Extra Trees Classifier (ET), and Voting Classifier (VC)) in forecasting the direction of stock price movement. Eight different stock data from three stock exchanges (NYSE, NASDAQ, and NSE) are randomly collected and used for the study. Each data set is split into training and test set. Ten-fold cross validation accuracy is used to evaluate the ML models on the training set. In addition, the ML models are evaluated on the test set using accuracy, precision, recall, F1-score, specificity, and area under receiver operating characteristics curve (AUC-ROC). Kendall W test of concordance is used to rank the performance of the tree-based ML algorithms. For the training set, the AdaBoost model performed better than the rest of the models. For the test set, accuracy, precision, F1-score, and AUC metrics generated results significant to rank the models, and the Extra Trees classifier outperformed the other models in all the rankings.

Prediction of Genotype Positivity in Patients with Hypertrophic Cardiomyopathy Using Machine Learning

2021 ◽  
Author(s):  
Lusha W. Liang ◽  
Michael A. Fifer ◽  
Kohei Hasegawa ◽  
Mathew S. Maurer ◽  
Muredach P. Reilly ◽  
...  
Keyword(s):  
Machine Learning ◽  
Genetic Testing ◽  
Hypertrophic Cardiomyopathy ◽  
Predictive Value ◽  
External Validation ◽  
Scoring Systems ◽  
Training Set ◽  
Test Set ◽  
Net Reclassification Improvement ◽  
Mayo Score

Background - Genetic testing can determine family screening strategies and has prognostic and diagnostic value in hypertrophic cardiomyopathy (HCM). However, it can also pose a significant psychosocial burden. Conventional scoring systems offer modest ability to predict genotype positivity. The aim of our study was to develop a novel prediction model for genotype positivity in patients with HCM by applying machine learning (ML) algorithms. Methods - We constructed three ML models using readily available clinical and cardiac imaging data of 102 patients from Columbia University with HCM who had undergone genetic testing (the training set). We validated model performance on 76 patients with HCM from Massachusetts General Hospital (the test set). Within the test set, we compared the area under the receiver operating characteristic curves (AUCs) for the ML models against the AUCs generated by the Toronto HCM Genotype Score ("the Toronto score") and Mayo HCM Genotype Predictor ("the Mayo score") using the Delong test and net reclassification improvement (NRI). Results - Overall, 63 of the 178 patients (35%) were genotype positive. The random forest ML model developed in the training set demonstrated an AUC of 0.92 (95% CI 0.85-0.99) in predicting genotype positivity in the test set, significantly outperforming the Toronto score (AUC 0.77, 95% CI 0.65-0.90, p=0.004, NRI: p<0.001) and the Mayo score (AUC 0.79, 95% CI 0.67-0.92, p=0.01, NRI: p=0.001). The gradient boosted decision tree ML model also achieved significant NRI over the Toronto score (p<0.001) and the Mayo score (p=0.03), with an AUC of 0.87 (95% CI 0.75-0.99). Compared to the Toronto and Mayo scores, all three ML models had higher sensitivity, positive predictive value, and negative predictive value. Conclusions - Our ML models demonstrated a superior ability to predict genotype positivity in patients with HCM compared to conventional scoring systems in an external validation test set.

scholarly journals Classification and Design of HIV-1 Integrase Inhibitors Based on Machine Learning

2021 ◽  
Vol 2021 ◽  
pp. 1-11
Author(s):  
Junlin Zhou ◽  
Juan Hao ◽  
Lianxin Peng ◽  
Huaichuan Duan ◽  
Qing Luo ◽  
...  
Keyword(s):  
Machine Learning ◽  
Molecular Descriptors ◽  
Specific Activity ◽  
Training Set ◽  
Molecular Fingerprint ◽  
Activity Data ◽  
Prediction Ability ◽  
Test Set ◽  
Molecular Fingerprints ◽  
Hiv 1

A key enzyme in human immunodeficiency virus type 1 (HIV-1) life cycle, integrase (IN) aids the integration of viral DNA into the host DNA, which has become an ideal target for the development of anti-HIV drugs. A total of 1785 potential HIV-1 IN inhibitors were collected from the databases of ChEMBL, Binding Database, DrugBank, and PubMed, as well as from 40 references. The database was divided into the training set and test set by random sampling. By exploring the correlation between molecular descriptors and inhibitory activity, it is found that the classification and specific activity data of inhibitors can be more accurately predicted by the combination of molecular descriptors and molecular fingerprints. The calculation of molecular fingerprint descriptor provides the additional substructure information to improve the prediction ability. Based on the training set, two machine learning methods, the recursive partition (RP) and naive Bayes (NB) models, were used to build the classifiers of HIV-1 IN inhibitors. Through the test set verification, the RP technique accurately predicted 82.5% inhibitors and 86.3% noninhibitors. The NB model predicted 88.3% inhibitors and 87.2% noninhibitors with correlation coefficient of 85.2%. The results show that the prediction performance of NB model is slightly better than that of RP, and the key molecular segments are also obtained. Additionally, CoMFA and CoMSIA models with good activity prediction ability both were constructed by exploring the structure-activity relationship, which is helpful for the design and optimization of HIV-1 IN inhibitors.

scholarly journals Histopathological Images and Multi-Omics Integration Predict Molecular Characteristics and Survival in Lung Adenocarcinoma

2021 ◽  
Vol 9 ◽  
Author(s):  
Linyan Chen ◽  
Hao Zeng ◽  
Yu Xiang ◽  
Yeqian Huang ◽  
Yuling Luo ◽  
...  
Keyword(s):  
Machine Learning ◽  
Lung Adenocarcinoma ◽  
Image Features ◽  
Molecular Characteristics ◽  
Learning Models ◽  
Training Set ◽  
Test Set ◽  
Genetic Aberrations ◽  
Histopathological Images ◽  
Machine Learning Models

Histopathological images and omics profiles play important roles in prognosis of cancer patients. Here, we extracted quantitative features from histopathological images to predict molecular characteristics and prognosis, and integrated image features with mutations, transcriptomics, and proteomics data for prognosis prediction in lung adenocarcinoma (LUAD). Patients obtained from The Cancer Genome Atlas (TCGA) were divided into training set (n = 235) and test set (n = 235). We developed machine learning models in training set and estimated their predictive performance in test set. In test set, the machine learning models could predict genetic aberrations: ALK (AUC = 0.879), BRAF (AUC = 0.847), EGFR (AUC = 0.855), ROS1 (AUC = 0.848), and transcriptional subtypes: proximal-inflammatory (AUC = 0.897), proximal-proliferative (AUC = 0.861), and terminal respiratory unit (AUC = 0.894) from histopathological images. Moreover, we obtained tissue microarrays from 316 LUAD patients, including four external validation sets. The prognostic model using image features was predictive of overall survival in test and four validation sets, with 5-year AUCs from 0.717 to 0.825. High-risk and low-risk groups stratified by the model showed different survival in test set (HR = 4.94, p &lt; 0.0001) and three validation sets (HR = 1.64–2.20, p &lt; 0.05). The combination of image features and single omics had greater prognostic power in test set, such as histopathology + transcriptomics model (5-year AUC = 0.840; HR = 7.34, p &lt; 0.0001). Finally, the model integrating image features with multi-omics achieved the best performance (5-year AUC = 0.908; HR = 19.98, p &lt; 0.0001). Our results indicated that the machine learning models based on histopathological image features could predict genetic aberrations, transcriptional subtypes, and survival outcomes of LUAD patients. The integration of histopathological images and multi-omics may provide better survival prediction for LUAD.

Machine learning for identifying resistance features of Klebsiella pneumoniae using whole-genome sequence single nucleotide polymorphisms

2021 ◽  
Vol 70 (11) ◽  
Author(s):  
Wenjia Liu ◽  
Nanjiao Ying ◽  
Qiusi Mo ◽  
Shanshan Li ◽  
Mengjie Shao ◽  
...  
Keyword(s):  
Machine Learning ◽  
Drug Resistance ◽  
Resistance Genes ◽  
Type Species ◽  
Whole Genome ◽  
Training Set ◽  
Test Set ◽  
Content Type ◽  
Machine Learning Methods ◽  
Link Type

Introduction. Klebsiella pneumoniae , a gram-negative bacterium, is a common pathogen causing nosocomial infection. The drug-resistance rate of K. pneumoniae is increasing year by year, posing a severe threat to public health worldwide. K. pneumoniae has been listed as one of the pathogens causing the global crisis of antimicrobial resistance in nosocomial infections. We need to explore the drug resistance of K. pneumoniae for clinical diagnosis. Single nucleotide polymorphisms (SNPs) are of high density and have rich genetic information in whole-genome sequencing (WGS), which can affect the structure or expression of proteins. SNPs can be used to explore mutation sites associated with bacterial resistance. Hypothesis/Gap Statement. Machine learning methods can detect genetic features associated with the drug resistance of K. pneumoniae from whole-genome SNP data. Aims. This work used Fast Feature Selection (FFS) and Codon Mutation Detection (CMD) machine learning methods to detect genetic features related to drug resistance of K. pneumoniae from whole-genome SNP data. Methods. WGS data on resistance of K. pneumoniae strains to four antibiotics (tetracycline, gentamicin, imipenem, amikacin) were downloaded from the European Nucleotide Archive (ENA). Sequence alignments were performed with MUMmer 3 to complete SNP calling using K. pneumoniae HS11286 chromosome as the reference genome. The FFS algorithm was applied to feature selection of the SNP dataset. The training set was constructed based on mutation sites with mutation frequency >0.995. Based on the original SNP training set, 70% of SNPs were randomly selected from each dataset as the test set to verify the accuracy of the training results. Finally, the resistance genes were obtained by the CMD algorithm and Venny. Results. The number of strains resistant to tetracycline, gentamicin, imipenem and amikacin was 931, 1048, 789 and 203, respectively. Machine learning algorithms were applied to the SNP training set and test set, and 28 and 23 resistance genes were predicted, respectively. The 28 resistance genes in the training set included 22 genes in the test set, which verified the accuracy of gene prediction. Among them, some genes (KPHS_35310, KPHS_18220, KPHS_35880, etc.) corresponded to known resistance genes (Eef2, lpxK, MdtC, etc). Logistic regression classifiers were established based on the identified SNPs in the training set. The area under the curves (AUCs) of the four antibiotics was 0.939, 0.950, 0.912 and 0.935, showing a strong ability to predict bacterial resistance. Conclusion. Machine learning methods can effectively be used to predict resistance genes and associated SNPs. The FFS and CMD algorithms have wide applicability. They can be used for the drug-resistance analysis of any microorganism with genomic variation and phenotypic data. This work lays a foundation for resistance research in clinical applications.

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