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Background: We report a study of machine learning applied to the phenotyping of psychiatric diagnosis for research recruitment in youth depression, conducted with 861 labelled electronic medical records (EMRs) documents. A model was built that could accurately identify individuals who were suitable candidates for a study on youth depression., Objective: Our objective was a model to identify individuals who meet inclusion criteria as well as unsuitable patients who would require exclusion., Methods: Our methods included applying a system that coded the EMR documents by removing personally identifying information, using two psychiatrists who labelled a set of EMR documents (from which the 861 came), using a brute force search and training a deep neural network for this task., Findings: According to a cross-validation evaluation, we describe a model that had a specificity of 97% and a sensitivity of 45% and a second model with a specificity of 53% and a sensitivity of 89%. We combined these two models into a third one (sensitivity 93.5%; specificity 68%; positive predictive value (precision) 77%) to generate a list of most suitable candidates in support of research recruitment., Conclusion: Our efforts are meant to demonstrate the potential for this type of approach for patient recruitment purposes but it should be noted that a larger sample size is required to build a truly reliable recommendation system., Clinical Implications: Future efforts will employ alternate neural network algorithms available and other machine learning methods., Competing Interests: Competing interests: None declared, (© Article author(s) (or their employer(s) unless otherwise stated in the text of the article) 2017. All rights reserved. No commercial use is permitted unless otherwise expressly granted.)

Introduction: Advances in machine learning (ML) methodologies, combined with multidisciplinary collaborations across biological and physical sciences, has the potential to propel drug discovery and development. Open Science fosters this collaboration by releasing datasets and methods into the public space; however, further education and widespread acceptance and adoption of Open Science approaches are necessary to tackle the plethora of known disease states. Motivation: In addition to providing much needed insights into potential therapeutic protein targets, we also aim to demonstrate that small patient datasets have the potential to provide insights that usually require many samples (>5,000). There are many such datasets available and novel advancements in ML can provide valuable insights from these patient datasets. Problem statement: Using a public dataset made available by patient advocacy group AnswerALS and a multidisciplinary Open Science approach with a systems biology augmented ML technology, we aim to validate previously reported drug targets in ALS and provide novel insights about ALS subpopulations and potential drug targets using a unique combination of ML methods and graph theory. Methodology: We use NetraAI to generate hypotheses about specific patient subpopulations, which were then refined and validated through a combination of ML techniques, systems biology methods, and expert input. Results: We extracted 8 target classes, each comprising of several genes that shed light into ALS pathophysiology and represent new avenues for treatment. These target classes are broadly categorized as inflammation, epigenetic, heat shock, neuromuscular junction, autophagy, apoptosis, axonal transport, and excitotoxicity. These findings are not mutually exclusive, and instead represent a systematic view of ALS pathophysiology. Based on these findings, we suggest that simultaneous targeting of ALS has the potential to mitigate ALS progression, with the plausibility of maintaining and sustaining an improved quality of life (QoL) for ALS patients. Even further, we identified subpopulations based on disease onset. Conclusion: In the spirit of Open Science, this work aims to bridge the knowledge gap in ALS pathophysiology to aid in diagnostic, prognostic, and therapeutic strategies and pave the way for the development of personalized treatments tailored to the individual's needs. [ABSTRACT FROM AUTHOR]

The field of computer vision has long grappled with the challenging task of image synthesis, which entails the creation of novel high-fidelity images. This task is underscored by the Generative Learning Trilemma, which posits that it is not possible for any image synthesis model to simultaneously excel at high-quality sampling, achieve mode convergence with diverse sample representation, and perform rapid sampling. In this paper, we explore the potential of Quantum Boltzmann Machines (QBMs) for image synthesis, leveraging the D-Wave 2000Q quantum annealer. We undertake a comprehensive performance assessment of QBMs in comparison to established generative models in the field: Restricted Boltzmann Machines (RBMs), Variational Autoencoders (VAEs), Generative Adversarial Networks (GANs), and Denoising Diffusion Probabilistic Models (DDPMs). Our evaluation is grounded in widely recognized scoring metrics, including the Fréchet Inception Distance (FID), Kernel Inception Distance (KID), and Inception Scores. The results of our study indicate that QBMs do not significantly outperform the conventional models in terms of the three evaluative criteria. Moreover, QBMs have not demonstrated the capability to overcome the challenges outlined in the Trilemma of Generative Learning. Through our investigation, we contribute to the understanding of quantum computing's role in generative learning and identify critical areas for future research to enhance the capabilities of image synthesis models. [ABSTRACT FROM AUTHOR]

Background: Risk of suicide-related behaviors is elevated among military personnel transitioning to civilian life. An earlier report showed that high-risk U.S. Army soldiers could be identified shortly before this transition with a machine learning model that included predictors from administrative systems, self-report surveys, and geospatial data. Based on this result, a Veterans Affairs and Army initiative was launched to evaluate a suicide-prevention intervention for high-risk transitioning soldiers. To make targeting practical, though, a streamlined model and risk calculator were needed that used only a short series of self-report survey questions. Methods: We revised the original model in a sample of n = 8335 observations from the Study to Assess Risk and Resilience in Servicemembers-Longitudinal Study (STARRS-LS) who participated in one of three Army STARRS 2011–2014 baseline surveys while in service and in one or more subsequent panel surveys (LS1: 2016–2018, LS2: 2018–2019) after leaving service. We trained ensemble machine learning models with constrained numbers of item-level survey predictors in a 70% training sample. The outcome was self-reported post-transition suicide attempts (SA). The models were validated in the 30% test sample. Results: Twelve-month post-transition SA prevalence was 1.0% (s.e. = 0.1). The best constrained model, with only 17 predictors, had a test sample ROC-AUC of 0.85 (s.e. = 0.03). The 10–30% of respondents with the highest predicted risk included 44.9–92.5% of 12-month SAs. Conclusions: An accurate SA risk calculator based on a short self-report survey can target transitioning soldiers shortly before leaving service for intervention to prevent post-transition SA. [ABSTRACT FROM AUTHOR]

Nurosene's NURO app (nurosene.com) is an innovative smartphone application that gathers and analyzes active self-report metrics from users, empowering them with data-driven health machine intelligence. We present the data collected and analyzed from the initial round of participants who responded to a 12-question survey on their life-style and health status. Exploratory results using a variational autoencoder (VAE) suggested that much of the variability of the 12 dimensional data could be accounted for by two approximately uncorrelated latent variables: one pertaining to stress and sleep, and the other pertaining to exercise and diet. Subsequentmodeling of the data using exploratory and confirmatory factor analyses (EFAs and CFAs) found that optimal data fits consisted of four factors, namely exercise, diet, stress, and sleep. Covariance values were high between exercise and diet, and between stress and sleep, but much lower between other pairings of non-identical factors. Both EFAs and CFAs provided extra contexts to and quantified the more preliminary VAE observations. Overall, our results significantly reduce the apparent complexity of the response data. This reduction allows for more efficient future stratification and analyses of participants based on simpler latent variables. Our discovery of novel relationships between stress and sleep, and between exercise and diet suggests the possibility of applying predictive analytics in future efforts. [ABSTRACT FROM AUTHOR]

The placebo response is a highly complex psychosocial-biological phenomenon that has challenged drug development for decades, particularly in neurological and psychiatric disease. While decades of research have aimed to understand clinical trial factors that contribute to the placebo response, a comprehensive solution to manage the placebo response in drug development has yet to emerge. Advanced data analytic techniques, such as artificial intelligence (AI), might be needed to take the next leap forward in mitigating the negative consequences of high placebo-response rates. The objective of this review was to explore the use of techniques such as AI and the sub-discipline of machine learning (ML) to address placebo response in practical ways that can positively impact drug development. This examination focused on the critical factors that should be considered in applying AI and ML to the placebo response issue, examples of how these techniques can be used, and the regulatory considerations for integrating these approaches into clinical trials. [ABSTRACT FROM AUTHOR]

Major depressive disorder (MDD) is one of the most prevalent psychiatric disorders and is commonly treated with antidepressant drugs. However, large variability is observed in terms of response to antidepressants. Machine learning (ML) models may be useful to predict treatment outcomes. A sample of 186 MDD patients received treatment with duloxetine for up to 8 weeks were categorized as “responders” based on a MADRS change >50% from baseline; or “remitters” based on a MADRS score ≤10 at end point. The initial dataset (N = 186) was randomly divided into training and test sets in a nested 5-fold cross-validation, where 80% was used as a training set and 20% made up five independent test sets. We performed genome-wide logistic regression to identify potentially significant variants related to duloxetine response/remission and extracted the most promising predictors using LASSO regression. Subsequently, classification-regression trees (CRT) and support vector machines (SVM) were applied to construct models, using ten-fold cross-validation. With regards to response, none of the pairs performed significantly better than chance (accuracy p > .1). For remission, SVM achieved moderate performance with an accuracy = 0.52, a sensitivity = 0.58, and a specificity = 0.46, and 0.51 for all coefficients for CRT. The best performing SVM fold was characterized by an accuracy = 0.66 (p = .071), sensitivity = 0.70 and a sensitivity = 0.61. In this study, the potential of using GWAS data to predict duloxetine outcomes was examined using ML models. The models were characterized by a promising sensitivity, but specificity remained moderate at best. The inclusion of additional non-genetic variables to create integrated models may improve prediction. [ABSTRACT FROM AUTHOR]

Major Depressive Disorder (MDD) is one of the most prevalent psychiatric disorders and is commonly treated with antidepressant drugs. However, large variability is observed in terms of response to antidepressants. GWAS based Machine Learning (ML) models may be useful to predict treatment response, thus improving antidepressant treatment. A sample of 186 MDD patients received treatment with duloxetine for up to 8 weeks were categorized as "responders" based on a Montgomery-Åsberg Depression Rating Scale (MADRS) change >50% from baseline; or "remitters" based on a MADRS score of 10 or lower at end point. The initial dataset (N=186) was randomly divided into training and test sets (70% and 30%, or 130 and 56 individuals respectively), resulting in ten different training and test set pairs. A genome-wide logistic regression was performed to identify potentially significant variants related to duloxetine response/remission and extracted the most promising predictors using LASSO regression. Subsequently, Classification-Regression Trees (CRT) and support vector machines (SVM) were applied to construct models, using ten-fold, repeated cross-validation. For the response phenotype, LASSO regression suggested twenty SNPs to be entered in prediction models. Calculated models for response achieved accuracy of 63.43% for CRT and 78.93% for SVM. For the remission phenotype, LASSO filtering suggested five SNPs. Best models were characterized by an accuracy of 65.45% with a sensitivity of 69.31% and specificity of 61.43%. In this study, the potential of using GWAS data to predict duloxetine response was examined using ML models. These models managed to capture a fraction of responders and remitters (i.e. moderate sensitivity), but failed to filter out non-responders and non-remitters (i.e. low specificity). Inclusion of additional non-genetic variables to create integrated models may help improve prediction results. [ABSTRACT FROM AUTHOR]