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1.
Comput Methods Programs Biomed ; 246: 108011, 2024 Apr.
Article in English | MEDLINE | ID: mdl-38325024

ABSTRACT

BACKGROUND AND OBJECTIVE: Vaccination against SARS-CoV-2 in immunocompromised patients with hematologic malignancies (HM) is crucial to reduce the severity of COVID-19. Despite vaccination efforts, over a third of HM patients remain unresponsive, increasing their risk of severe breakthrough infections. This study aims to leverage machine learning's adaptability to COVID-19 dynamics, efficiently selecting patient-specific features to enhance predictions and improve healthcare strategies. Highlighting the complex COVID-hematology connection, the focus is on interpretable machine learning to provide valuable insights to clinicians and biologists. METHODS: The study evaluated a dataset with 1166 patients with hematological diseases. The output was the achievement or non-achievement of a serological response after full COVID-19 vaccination. Various machine learning methods were applied, with the best model selected based on metrics such as the Area Under the Curve (AUC), Sensitivity, Specificity, and Matthew Correlation Coefficient (MCC). Individual SHAP values were obtained for the best model, and Principal Component Analysis (PCA) was applied to these values. The patient profiles were then analyzed within identified clusters. RESULTS: Support vector machine (SVM) emerged as the best-performing model. PCA applied to SVM-derived SHAP values resulted in four perfectly separated clusters. These clusters are characterized by the proportion of patients that generate antibodies (PPGA). Cluster 1, with the second-highest PPGA (69.91%), included patients with aggressive diseases and factors contributing to increased immunodeficiency. Cluster 2 had the lowest PPGA (33.3%), but the small sample size limited conclusive findings. Cluster 3, representing the majority of the population, exhibited a high rate of antibody generation (84.39%) and a better prognosis compared to cluster 1. Cluster 4, with a PPGA of 66.33%, included patients with B-cell non-Hodgkin's lymphoma on corticosteroid therapy. CONCLUSIONS: The methodology successfully identified four separate patient clusters using Machine Learning and Explainable AI (XAI). We then analyzed each cluster based on the percentage of HM patients who generated antibodies after COVID-19 vaccination. The study suggests the methodology's potential applicability to other diseases, highlighting the importance of interpretable ML in healthcare research and decision-making.


Subject(s)
COVID-19 , Hematologic Diseases , Humans , COVID-19 Vaccines , Area Under Curve , Machine Learning
2.
J Chem Inf Model ; 64(7): 2775-2788, 2024 Apr 08.
Article in English | MEDLINE | ID: mdl-37660324

ABSTRACT

Drug development involves the thorough assessment of the candidate's safety and efficacy. In silico toxicology (IST) methods can contribute to the assessment, complementing in vitro and in vivo experimental methods, since they have many advantages in terms of cost and time. Also, they are less demanding concerning the requirements of product and experimental animals. One of these methods, Quantitative Structure-Activity Relationships (QSAR), has been proven successful in predicting simple toxicity end points but has more difficulties in predicting end points involving more complex phenomena. We hypothesize that QSAR models can produce better predictions of these end points by combining multiple QSAR models describing simpler biological phenomena and incorporating pharmacokinetic (PK) information, using quantitative in vitro to in vivo extrapolation (QIVIVE) models. In this study, we applied our methodology to the prediction of cholestasis and compared it with direct QSAR models. Our results show a clear increase in sensitivity. The predictive quality of the models was further assessed to mimic realistic conditions where the query compounds show low similarity with the training series. Again, our methodology shows clear advantages over direct QSAR models in these situations. We conclude that the proposed methodology could improve existing methodologies and could be suitable for being applied to other toxicity end points.


Subject(s)
Cholestasis , Quantitative Structure-Activity Relationship , Animals , Toxicokinetics , Drug Development , Cholestasis/chemically induced
3.
Toxicol Lett ; 389: 34-44, 2023 Nov 01.
Article in English | MEDLINE | ID: mdl-37890682

ABSTRACT

New Approach Methodologies (NAMs) have ushered in a new era in the field of toxicology, aiming to replace animal testing. However, despite these advancements, they are not exempt from the inherent complexities associated with the study's endpoint. In this review, we have identified three major groups of complexities: mechanistic, chemical space, and methodological. The mechanistic complexity arises from interconnected biological processes within a network that are challenging to model in a single step. In the second group, chemical space complexity exhibits significant dissimilarity between compounds in the training and test series. The third group encompasses algorithmic and molecular descriptor limitations and typical class imbalance problems. To address these complexities, this work provides a guide to the usage of a combination of predictive Quantitative Structure-Activity Relationship (QSAR) models, known as metamodels. This combination of low-level models (LLMs) enables a more precise approach to the problem by focusing on different sub-mechanisms or sub-processes. For mechanistic complexity, multiple Molecular Initiating Events (MIEs) or levels of information are combined to form a mechanistic-based metamodel. Regarding the complexity arising from chemical space, two types of approaches were reviewed to construct a fragment-based chemical space metamodel: those with and without structure sharing. Metamodels with structure sharing utilize unsupervised strategies to identify data patterns and build low-level models for each cluster, which are then combined. For situations without structure sharing due to pharmaceutical industry intellectual property, the use of prediction sharing, and federated learning approaches have been reviewed. Lastly, to tackle methodological complexity, various algorithms are combined to overcome their limitations, diverse descriptors are employed to enhance problem definition and balanced dataset combinations are used to address class imbalance issues (methodological-based metamodels). Remarkably, metamodels consistently outperformed classical QSAR models across all cases, highlighting the importance of alternatives to classical QSAR models when faced with such complexities.


Subject(s)
Algorithms , Quantitative Structure-Activity Relationship , Animals
4.
Eur Radiol ; 33(7): 5087-5096, 2023 Jul.
Article in English | MEDLINE | ID: mdl-36690774

ABSTRACT

OBJECTIVE: Automatic MR imaging segmentation of the prostate provides relevant clinical benefits for prostate cancer evaluation such as calculation of automated PSA density and other critical imaging biomarkers. Further, automated T2-weighted image segmentation of central-transition zone (CZ-TZ), peripheral zone (PZ), and seminal vesicle (SV) can help to evaluate clinically significant cancer following the PI-RADS v2.1 guidelines. Therefore, the main objective of this work was to develop a robust and reproducible CNN-based automatic prostate multi-regional segmentation model using an intercontinental cohort of prostate MRI. METHODS: A heterogeneous database of 243 T2-weighted prostate studies from 7 countries and 10 machines of 3 different vendors, with the CZ-TZ, PZ, and SV regions manually delineated by two experienced radiologists (ground truth), was used to train (n = 123) and test (n = 120) a U-Net-based model with deep supervision using a cyclical learning rate. The performance of the model was evaluated by means of dice similarity coefficient (DSC), among others. Segmentation results with a DSC above 0.7 were considered accurate. RESULTS: The proposed method obtained a DSC of 0.88 ± 0.01, 0.85 ± 0.02, 0.72 ± 0.02, and 0.72 ± 0.02 for the prostate gland, CZ-TZ, PZ, and SV respectively in the 120 studies of the test set when comparing the predicted segmentations with the ground truth. No statistically significant differences were found in the results obtained between manufacturers or continents. CONCLUSION: Prostate multi-regional T2-weighted MR images automatic segmentation can be accurately achieved by U-Net like CNN, generalizable in a highly variable clinical environment with different equipment, acquisition configurations, and population. KEY POINTS: • Deep learning techniques allows the accurate segmentation of the prostate in three different regions on MR T2w images. • Multi-centric database proved the generalization of the CNN model on different institutions across different continents. • CNN models can be used to aid on the diagnosis and follow-up of patients with prostate cancer.


Subject(s)
Magnetic Resonance Imaging , Prostatic Neoplasms , Male , Humans , Magnetic Resonance Imaging/methods , Prostate/diagnostic imaging , Prostate/pathology , Prostatic Neoplasms/diagnostic imaging , Prostatic Neoplasms/pathology , Neural Networks, Computer , Magnetic Resonance Spectroscopy , Image Processing, Computer-Assisted/methods
5.
Ann Hematol ; 101(9): 2053-2067, 2022 Sep.
Article in English | MEDLINE | ID: mdl-35780254

ABSTRACT

Prior studies of antibody response after full SARS-CoV-2 vaccination in hematological patients have confirmed lower antibody levels compared to the general population. Serological response in hematological patients varies widely according to the disease type and its status, and the treatment given and its timing with respect to vaccination. Through probabilistic machine learning graphical models, we estimated the conditional probabilities of having detectable anti-SARS-CoV-2 antibodies at 3-6 weeks after SARS-CoV-2 vaccination in a large cohort of patients with several hematological diseases (n= 1166). Most patients received mRNA-based vaccines (97%), mainly Moderna® mRNA-1273 (74%) followed by Pfizer-BioNTech® BNT162b2 (23%). The overall antibody detection rate at 3 to 6 weeks after full vaccination for the entire cohort was 79%. Variables such as type of disease, timing of anti-CD20 monoclonal antibody therapy, age, corticosteroids therapy, vaccine type, disease status, or prior infection with SARS-CoV-2 are among the most relevant conditions influencing SARS-CoV-2-IgG-reactive antibody detection. A lower probability of having detectable antibodies was observed in patients with B-cell non-Hodgkin's lymphoma treated with anti-CD20 monoclonal antibodies within 6 months before vaccination (29.32%), whereas the highest probability was observed in younger patients with chronic myeloproliferative neoplasms (99.53%). The Moderna® mRNA-1273 compound provided higher probabilities of antibody detection in all scenarios. This study depicts conditional probabilities of having detectable antibodies in the whole cohort and in specific scenarios such as B cell NHL, CLL, MM, and cMPN that may impact humoral responses. These results could be useful to focus on additional preventive and/or monitoring interventions in these highly immunosuppressed hematological patients.


Subject(s)
Antineoplastic Agents , COVID-19 , Antibodies, Monoclonal , Antibodies, Viral , BNT162 Vaccine , COVID-19/diagnosis , COVID-19/prevention & control , COVID-19 Vaccines , Early Detection of Cancer , Humans , SARS-CoV-2 , Vaccination
6.
J Happiness Stud ; 23(4): 1683-1708, 2022.
Article in English | MEDLINE | ID: mdl-34744499

ABSTRACT

COVID-19 pandemic-related confinement may be a fruitful opportunity to use individual resources to deal with it or experience psychological functioning changes. This study aimed to analyze the evolution of different psychological variables during the first coronavirus wave to identify the different psychological response clusters, as well as to keep a follow-up on the changes among these clusters. The sample included 459 Spanish residents (77.8% female, Mage = 35.21 years, SDage = 13.00). Participants completed several online self-reported questionnaires to assess positive functioning variables (MLQ, Steger et al. in J Loss Trauma 13(6):511-527, 2006. 10.1080/15325020802173660; GQ-6, McCullough et al. in J Person Soc Psychol 82:112-127, 2002. 10.1037/0022-3514.82.1.112; CD-RISC, Campbell-Sills and Stein in J Traum Stress 20(6):1019-1028, 2007. 10.1002/jts.20271; CLS-H, Chiesi et al. in BMC Psychol 8(1):1-9, 2020. 10.1186/s40359-020-0386-9; SWLS; Diener et al. in J Person Assess, 49(1), 71-75, 1985), emotional distress (PHQ-2, Kroenke et al. in Med Care 41(11):1284-1292, 2003. 10.1097/01.MLR.0000093487.78664.3C; GAD-2, Kroenke et al. in Ann Internal Med 146(5):317-325, 2007. 10.7326/0003-4819-146-5-200703060-00004; PANAS, Watson et al. in J Person Soc Psychol 47:1063-1070, 1988; Perceived Stress, ad hoc), and post-traumatic growth (PTGI-SF; Cann et al. in Anxiety Stress Coping 23(2):127-137, 2010. 10.1080/10615800903094273), four times throughout the 3 months of the confinement. Linear mixed models showed that the scores on positive functioning variables worsened from the beginning of the confinement, while emotional distress and personal strength improved by the end of the state of alarm. Clustering analyses revealed four different patterns of psychological response: "Survival", "Resurgent", "Resilient", and "Thriving" individuals. Four different profiles were identified during mandatory confinement and most participants remained in the same cluster. The "Resilient" cluster gathered the largest number of individuals (30-37%). We conclude that both the heterogeneity of psychological profiles and analysis of positive functioning variables, emotional distress, and post-traumatic growth must be considered to better understand the response to prolonged adverse situations. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1007/s10902-021-00469-z.

7.
Sensors (Basel) ; 21(16)2021 Aug 18.
Article in English | MEDLINE | ID: mdl-34450984

ABSTRACT

One of the most powerful techniques to diagnose cardiovascular diseases is to analyze the electrocardiogram (ECG). To increase diagnostic sensitivity, the ECG might need to be acquired using an ambulatory system, as symptoms may occur during a patient's daily life. In this paper, we propose using an ambulatory ECG (aECG) recording device with a low number of leads and then estimating the views that would have been obtained with a standard ECG location, reconstructing the complete Standard 12-Lead System, the most widely used system for diagnosis by cardiologists. Four approaches have been explored, including Linear Regression with ECG segmentation and Artificial Neural Networks (ANN). The best reconstruction algorithm is based on ANN, which reconstructs the actual ECG signal with high precision, as the results bring a high accuracy (RMS Error < 13 µV and CC > 99.7%) for the set of patients analyzed in this paper. This study supports the hypothesis that it is possible to reconstruct the Standard 12-Lead System using an aECG recording device with less leads.


Subject(s)
Neural Networks, Computer , Signal Processing, Computer-Assisted , Algorithms , Electrocardiography , Electrocardiography, Ambulatory , Humans
8.
Article in English | MEDLINE | ID: mdl-33198392

ABSTRACT

This paper analyzes a sample of patients hospitalized with COVID-19 in the region of Madrid (Spain). Survival analysis, logistic regression, and machine learning techniques (both supervised and unsupervised) are applied to carry out the analysis where the endpoint variable is the reason for hospital discharge (home or deceased). The different methods applied show the importance of variables such as age, O2 saturation at Emergency Rooms (ER), and whether the patient comes from a nursing home. In addition, biclustering is used to globally analyze the patient-drug dataset, extracting segments of patients. We highlight the validity of the classifiers developed to predict the mortality, reaching an appreciable accuracy. Finally, interpretable decision rules for estimating the risk of mortality of patients can be obtained from the decision tree, which can be crucial in the prioritization of medical care and resources.


Subject(s)
Coronavirus Infections/mortality , Machine Learning , Pneumonia, Viral/mortality , Betacoronavirus , COVID-19 , Decision Trees , Humans , Pandemics , SARS-CoV-2 , Spain/epidemiology
9.
Article in English | MEDLINE | ID: mdl-31614706

ABSTRACT

Physical activity (PA) is highly beneficial for people with haemophilia (PWH), however, studies that objectively monitor the PA in this population are scarce. This study aimed to monitor the daily PA and analyse its evolution over time in a cohort of PWH using a commercial activity tracker. In addition, this work analyses the relationship between PA levels, demographics, and joint health status, as well as the acceptance and adherence to the activity tracker. Twenty-six PWH were asked to wear a Fitbit Charge HR for 13 weeks. According to the steps/day in the first week, data were divided into two groups: Active Group (AG; ≥10,000 steps/day) and Non-Active Group (NAG; <10,000 steps/day). Correlations between PA and patient characteristics were studied using the Pearson coefficient. Participants' user experience was analysed with a questionnaire. The 10,000 steps/day was reached by 57.7% of participants, with 12,603 (1525) and 7495 (1626) being the mean steps/day of the AG and NAG, respectively. In general, no significant variations (p > 0.05) in PA levels or adherence to wristband were produced. Only the correlation between very active minutes and arthropathy was significant (r = -0.40, p = 0.045). Results of the questionnaire showed a high level of satisfaction. In summary, PWH are able to comply with the PA recommendations, and the Fitbit wristband is a valid tool for a continuous and long-term monitoring of PA. However, by itself, the use of a wristband is not enough motivation to increase PA levels.


Subject(s)
Exercise , Fitness Trackers , Hemophilia A/physiopathology , Adult , Female , Humans , Male , Middle Aged , Monitoring, Physiologic/methods , Motivation , Patient Compliance , Surveys and Questionnaires
10.
Sensors (Basel) ; 19(8)2019 Apr 12.
Article in English | MEDLINE | ID: mdl-31013789

ABSTRACT

The introduction of a mechanical harvesting process for oranges can contribute to enhancing farm profitability and reducing labour dependency. The objective of this work is to determine the spread of the vibration in citrus tree canopies to establish recommendations to reach high values of fruit detachment efficiency and eliminate the need for subsequent hand-harvesting processes. Field tests were carried out with a lateral tractor-drawn canopy shaker on four commercial plots of sweet oranges. Canopy vibration during the harvesting process was measured with a set of triaxial accelerometer sensors with a datalogger placed on 90 bearing branches. Monitoring of the vibration process, fruit production, and branch properties were analysed. The improvement of fruit detachment efficiency was possible if both the hedge tree and the machinery were mutually adjusted. The hedge should be trained to facilitate access of the rods and to encourage external fructification since the internal canopy branches showed 43% of the acceleration vibration level of the external branches. The machine should be adjusted to vibrate the branches at a vibration time of at least 5.8 s, after the interaction of the rod with the branch, together with a root mean square acceleration value of 23.9 m/s2 to a complete process of fruit detachment.

11.
Haemophilia ; 25(3): e165-e173, 2019 May.
Article in English | MEDLINE | ID: mdl-30994246

ABSTRACT

INTRODUCTION: The joint range of motion (ROM) is an important clinical parameter used to assess the loss of functionality resulting from joint bleedings in people with haemophilia. These episodes require a close follow-up and, to decrease patients' hospital dependence, telemedicine tools are needed. Therefore, this study is aimed to analyse the validity of the Microsoft Kinect V2 sensor with corrected angle measurement to be used in the monitoring of elbow ROM in people with haemophilia. METHODS: A convenience sample of 10 healthy controls (CG) and 10 patients with haemophilia with elbow arthropathy (HG) participated in this study. Full ROM of elbow joints was measured in the frontal view with a 10-degree sweep using: (a) a clinical goniometer; (b) the Kinect V2; (c) the Kinect V2 with angle correction; and (d) using a photograph. Bland-Altman graphs (mean and 95% Limits of Agreement [LOA]) and Wilcoxon test were used to determine differences between measurements and groups. RESULTS: The angle-corrected Kinect V2 measurement removed the skew in the original data, reducing the average errors from 7.9° (LoA = -10.3°; 26.0°; CG) and 9.5° (LoA = -7.9°; 26.9°; HG) to -0.1° (LoA = -8.1°; 7.9°; CG) and -0.7° (LoA = -10.7°; 9.3°; HG). CONCLUSIONS: These error levels allow the use of Kinect V2 in the clinical practice. Kinect V2 with angle correction can complement the classical goniometry allowing an efficient and touchless measurement of ROM.


Subject(s)
Elbow Joint/physiopathology , Hemarthrosis/complications , Hemarthrosis/physiopathology , Hemophilia A/complications , Models, Statistical , Range of Motion, Articular , Adult , Female , Humans , Male
12.
Sensors (Basel) ; 18(8)2018 Jul 26.
Article in English | MEDLINE | ID: mdl-30050026

ABSTRACT

Patients with hemophilia need to strictly follow exercise routines to minimize their risk of suffering bleeding in joints, known as hemarthrosis. This paper introduces and validates a new exergaming software tool called HemoKinect that intends to keep track of exercises using Microsoft Kinect V2's body tracking capabilities. The software has been developed in C++ and MATLAB. The Kinect SDK V2.0 libraries have been used to obtain 3D joint positions from the Kinect color and depth sensors. Performing angle calculations and center-of-mass (COM) estimations using these joint positions, HemoKinect can evaluate the following exercises: elbow flexion/extension, knee flexion/extension (squat), step climb (ankle exercise) and multi-directional balance based on COM. The software generates reports and progress graphs and is able to directly send the results to the physician via email. Exercises have been validated with 10 controls and eight patients. HemoKinect successfully registered elbow and knee exercises, while displaying real-time joint angle measurements. Additionally, steps were successfully counted in up to 78% of the cases. Regarding balance, differences were found in the scores according to the difficulty level and direction. HemoKinect supposes a significant leap forward in terms of exergaming applicability to rehabilitation of patients with hemophilia, allowing remote supervision.


Subject(s)
Exercise Therapy , Exercise/physiology , Hemarthrosis/etiology , Hemarthrosis/prevention & control , Hemophilia A/complications , Software , Adult , Elbow/physiology , Female , Hemarthrosis/rehabilitation , Humans , Knee/physiology , Male
13.
J Magn Reson Imaging ; 42(5): 1362-8, 2015 Nov.
Article in English | MEDLINE | ID: mdl-25865833

ABSTRACT

PURPOSE: To develop a classification model using texture features and support vector machine in contrast-enhanced T1-weighted images to differentiate between brain metastasis and radiation necrosis. METHODS: Texture features were extracted from 115 lesions: 32 of them previously diagnosed as radiation necrosis, 23 as radiation-treated metastasis and 60 untreated metastases; including a total of 179 features derived from six texture analysis methods. A feature selection technique based on support vector machine was used to obtain a subset of features that provide optimal performance. RESULTS: The highest classification accuracy evaluated over test sets was achieved with a subset of ten features when the untreated metastases were not considered; and with a subset of seven features when the classifier was trained with untreated metastases and tested on treated ones. Receiver operating characteristic curves provided area-under-the-curve (mean ± standard deviation) of 0.94 ± 0.07 in the first case, and 0.93 ± 0.02 in the second. CONCLUSION: High classification accuracy (AUC > 0.9) was obtained using texture features and a support vector machine classifier in an approach based on conventional MRI to differentiate between brain metastasis and radiation necrosis.


Subject(s)
Brain Neoplasms/diagnosis , Brain Neoplasms/secondary , Brain/pathology , Magnetic Resonance Imaging , Radiation Injuries/pathology , Support Vector Machine , Area Under Curve , Contrast Media , Diagnosis, Differential , Female , Humans , Image Enhancement , Male , Middle Aged , Necrosis , Reproducibility of Results , Retrospective Studies
14.
Artif Intell Med ; 62(1): 47-60, 2014 Sep.
Article in English | MEDLINE | ID: mdl-25091172

ABSTRACT

OBJECTIVE: Anemia is a frequent comorbidity in hemodialysis patients that can be successfully treated by administering erythropoiesis-stimulating agents (ESAs). ESAs dosing is currently based on clinical protocols that often do not account for the high inter- and intra-individual variability in the patient's response. As a result, the hemoglobin level of some patients oscillates around the target range, which is associated with multiple risks and side-effects. This work proposes a methodology based on reinforcement learning (RL) to optimize ESA therapy. METHODS: RL is a data-driven approach for solving sequential decision-making problems that are formulated as Markov decision processes (MDPs). Computing optimal drug administration strategies for chronic diseases is a sequential decision-making problem in which the goal is to find the best sequence of drug doses. MDPs are particularly suitable for modeling these problems due to their ability to capture the uncertainty associated with the outcome of the treatment and the stochastic nature of the underlying process. The RL algorithm employed in the proposed methodology is fitted Q iteration, which stands out for its ability to make an efficient use of data. RESULTS: The experiments reported here are based on a computational model that describes the effect of ESAs on the hemoglobin level. The performance of the proposed method is evaluated and compared with the well-known Q-learning algorithm and with a standard protocol. Simulation results show that the performance of Q-learning is substantially lower than FQI and the protocol. When comparing FQI and the protocol, FQI achieves an increment of 27.6% in the proportion of patients that are within the targeted range of hemoglobin during the period of treatment. In addition, the quantity of drug needed is reduced by 5.13%, which indicates a more efficient use of ESAs. CONCLUSION: Although prospective validation is required, promising results demonstrate the potential of RL to become an alternative to current protocols.


Subject(s)
Anemia/drug therapy , Artificial Intelligence , Decision Support Techniques , Hematinics/therapeutic use , Reinforcement, Psychology , Renal Dialysis/adverse effects , Aged , Algorithms , Anemia/blood , Anemia/etiology , Chronic Disease , Female , Hemoglobin A/metabolism , Humans , Kidney Failure, Chronic/complications , Kidney Failure, Chronic/therapy , Male , Markov Chains , Middle Aged , Patient Selection
15.
Comput Methods Programs Biomed ; 117(2): 208-17, 2014 Nov.
Article in English | MEDLINE | ID: mdl-25070755

ABSTRACT

Patients who suffer from chronic renal failure (CRF) tend to suffer from an associated anemia as well. Therefore, it is essential to know the hemoglobin (Hb) levels in these patients. The aim of this paper is to predict the hemoglobin (Hb) value using a database of European hemodialysis patients provided by Fresenius Medical Care (FMC) for improving the treatment of this kind of patients. For the prediction of Hb, both analytical measurements and medication dosage of patients suffering from chronic renal failure (CRF) are used. Two kinds of models were trained, global and local models. In the case of local models, clustering techniques based on hierarchical approaches and the adaptive resonance theory (ART) were used as a first step, and then, a different predictor was used for each obtained cluster. Different global models have been applied to the dataset such as Linear Models, Artificial Neural Networks (ANNs), Support Vector Machines (SVM) and Regression Trees among others. Also a relevance analysis has been carried out for each predictor model, thus finding those features that are most relevant for the given prediction.


Subject(s)
Anemia/blood , Anemia/drug therapy , Artificial Intelligence , Drug Monitoring/methods , Erythropoietin/administration & dosage , Hemoglobins/analysis , Renal Dialysis/adverse effects , Adolescent , Adult , Aged , Aged, 80 and over , Algorithms , Anemia/diagnosis , Biomarkers/blood , Computer Simulation , Dose-Response Relationship, Drug , Drug Therapy, Computer-Assisted/methods , Female , Humans , Male , Middle Aged , Models, Cardiovascular , Renal Dialysis/methods , Reproducibility of Results , Sensitivity and Specificity , Treatment Outcome , Young Adult
16.
Comput Biol Med ; 45: 1-7, 2014 Feb.
Article in English | MEDLINE | ID: mdl-24480157

ABSTRACT

This work presents the application of machine learning techniques to analyse the influence of physical exercise in the physiological properties of the heart, during ventricular fibrillation. To this end, different kinds of classifiers (linear and neural models) are used to classify between trained and sedentary rabbit hearts. The use of those classifiers in combination with a wrapper feature selection algorithm allows to extract knowledge about the most relevant features in the problem. The obtained results show that neural models outperform linear classifiers (better performance indices and a better dimensionality reduction). The most relevant features to describe the benefits of physical exercise are those related to myocardial heterogeneity, mean activation rate and activation complexity.


Subject(s)
Physical Conditioning, Animal/physiology , Physical Fitness/physiology , Signal Processing, Computer-Assisted , Ventricular Fibrillation/physiopathology , Animals , Artificial Intelligence , Electrocardiography/classification , Male , Rabbits , Ventricular Fibrillation/classification
17.
Comput Biol Med ; 43(11): 1863-9, 2013 Nov.
Article in English | MEDLINE | ID: mdl-24209931

ABSTRACT

Sparse Manifold Clustering and Embedding (SMCE) algorithm has been recently proposed for simultaneous clustering and dimensionality reduction of data on nonlinear manifolds using sparse representation techniques. In this work, SMCE algorithm is applied to the differential discrimination of Glioblastoma and Meningioma Tumors by means of their Gene Expression Profiles. Our purpose was to evaluate the robustness of this nonlinear manifold to classify gene expression profiles, characterized by the high-dimensionality of their representations and the low discrimination power of most of the genes. For this objective, we used SMCE to reduce the dimensionality of a preprocessed dataset of 35 single-labeling cDNA microarrays with 11500 original clones. Afterwards, supervised and unsupervised methodologies were applied to obtain the classification model: the former was based on linear discriminant analysis, the later on clustering using the SMCE embedding data. The results obtained using both approaches showed that all (100%) the samples could be correctly classified and the results of all repetitions but one formed a compatible cluster of predictive labels. Finally, the embedding dimensionality of the dataset extracted by SMCE revealed large discrimination margins between both classes.


Subject(s)
Cluster Analysis , Computational Biology/methods , Gene Expression Profiling/methods , Glioblastoma/genetics , Meningioma/genetics , Transcriptome/genetics , Algorithms , Databases, Genetic , Discriminant Analysis , Glioblastoma/metabolism , Humans , Meningioma/metabolism , Oligonucleotide Array Sequence Analysis
18.
Comput Methods Programs Biomed ; 111(2): 269-79, 2013 Aug.
Article in English | MEDLINE | ID: mdl-23773559

ABSTRACT

Detection of ventricular fibrillation (VF) at an early stage is being deeply studied in order to lower the risk of sudden death and allows the specialist to have greater reaction time to give the patient a good recovering therapy. Some works are focusing on detecting VF based on numerical analysis of time-frequency distributions, but in general the methods used do not provide insight into the problem. However, this study proposes a new methodology in order to obtain information about this problem. This work uses a supervised self-organising map (SOM) to obtain visually information among four important groups of patients: VF (ventricular fibrillation), VT (ventricular tachycardia), HP (healthy patients) and AHR (other anomalous heart rates and noise). A total number of 27 variables were obtained from continuous surface ECG recordings in standard databases (MIT and AHA), providing information in the time, frequency, and time-frequency domains. self-organising maps (SOMs), trained with 11 of the 27 variables, were used to extract knowledge about the variable values for each group of patients. Results show that the SOM technique allows to determine the profile of each group of patients, assisting in gaining a deeper understanding of this clinical problem. Additionally, information about the most relevant variables is given by the SOM analysis.


Subject(s)
Data Mining/methods , Tachycardia, Ventricular/diagnosis , Ventricular Fibrillation/diagnosis , Algorithms , Databases, Factual , Electrocardiography/methods , Heart Rate , Humans , Neural Networks, Computer , Signal Processing, Computer-Assisted , Software , Tachycardia, Ventricular/physiopathology , Time Factors , Ventricular Fibrillation/physiopathology
19.
Comput Methods Programs Biomed ; 110(1): 76-81, 2013 Apr.
Article in English | MEDLINE | ID: mdl-23176896

ABSTRACT

This paper tackles the design of a graphical user interface (GUI) based on Matlab (MathWorks Inc., MA), a worldwide standard in the processing of biosignals, which allows the acquisition of muscular force signals and images from a ultrasound scanner simultaneously. Thus, it is possible to unify two key magnitudes for analyzing the evolution of muscular injuries: the force exerted by the muscle and section/length of the muscle when such force is exerted. This paper describes the modules developed to finally show its applicability with a case study to analyze the functioning capacity of the shoulder rotator cuff.


Subject(s)
Muscle, Skeletal/diagnostic imaging , Muscle, Skeletal/physiology , Software , User-Computer Interface , Biomechanical Phenomena , Humans , Isometric Contraction/physiology , Muscle Strength/physiology , Muscle, Skeletal/injuries , Rotator Cuff/diagnostic imaging , Rotator Cuff/physiology , Rotator Cuff Injuries , Signal Processing, Computer-Assisted , Ultrasonography, Doppler
20.
Health Care Manag Sci ; 15(1): 79-90, 2012 Mar.
Article in English | MEDLINE | ID: mdl-22083440

ABSTRACT

The Balanced Scorecard (BSC) is a validated tool to monitor enterprise performances against specific objectives. Through the choice and the evaluation of strategic Key Performance Indicators (KPIs), it provides a measure of the past company's outcome and allows planning future managerial strategies. The Fresenius Medical Care (FME) BSC makes use of 30 KPIs for a continuous quality improvement strategy within its dialysis clinics. Each KPI is monthly associated to a score that summarizes the clinic efficiency for that month. Standard statistical methods are currently used to analyze the BSC data and to give a comprehensive view of the corporate improvements to the top management. We herein propose the Self-Organizing Maps (SOMs) as an innovative approach to extrapolate information from the FME BSC data and to present it in an easy-readable informative form. A SOM is a computational technique that allows projecting high-dimensional datasets to a two-dimensional space (map), thus providing a compressed representation. The SOM unsupervised (self-organizing) training procedure results in a map that preserves similarity relations existing in the original dataset; in this way, the information contained in the high-dimensional space can be more easily visualized and understood. The present work demonstrates the effectiveness of the SOM approach in extracting useful information from the 30-dimensional BSC dataset: indeed, SOMs enabled both to highlight expected relationships between the KPIs and to uncover results not predictable with traditional analyses. Hence we suggest SOMs as a reliable complementary approach to the standard methods for BSC interpretation.


Subject(s)
Ambulatory Care Facilities/organization & administration , Quality of Health Care/organization & administration , Renal Dialysis , Humans , Quality Indicators, Health Care/organization & administration
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