DPVis integrates HMMs into visualizations for disease progression analysis.
problem Challenges in interpreting HMMs for disease progression modeling.
method Design study with clinical experts, visualizations of HMM parameters and outcomes.
result DPVis successfully evaluates and summarizes disease progression models.
SS3M learns disease phenotypes from few labels.
problem Lack of supervised data for disease phenotyping.
method Semi-Supervised Mixed Membership Model (SS3M).
result SS3M learns interpretable disease phenotypes.
Bayesian model identifies health disparities in disease progression.
problem Health disparities bias disease progression models.
method Interpretable Bayesian model accounting for three disparities.
result Model identifies and corrects for health disparities.
Bayesian hypergraph inference models disease pathways from EHR data.
problem Modeling rare diseases influenced by shared risk factors.
method Bayesian hypergraph inference framework reframing multi-disease modeling.
result Interpretable disease pathways and well-calibrated uncertainty quantification.
Model learns disease self-representations for drug repositioning.
problem Drug repositioning for disease treatment.
method Enforces proximity in disease self-representations to preserve human phenome network structure.
result Method outperforms state-of-the-art approaches and produces biologically interpretable disease self-representations.
Bayesian meta-learning predicts Alzheimer's disease progression.
problem Predicting individual Alzheimer's disease progression from limited data.
method Bayesian meta-learning approach that dynamically predicts disease score distributions.
result Bayesian meta-learner outperforms single-task models and deterministic meta-learners, especially for long-term predictions.
Modeling disease progression in irregularly observed patients.
problem Irregular patient observation in healthcare databases.
method Continuous-time hidden Markov model with generalized linear model.
result Interpretable model of healthcare utilization events.
Discriminative EBM predicts Alzheimer's disease progression timeline more accurately.
problem Estimating the sequence of biomarker abnormalities in Alzheimer's disease.
method Discriminative event-based modeling (EBM) with a generalized Mallows model for central ordering and relative distance between events.
result The proposed method outperformed existing state-of-the-art EBM methods in ADNI and synthetic data.
Enhances disease progression modeling using LLMs for complex brain connectivity.
problem Inaccurate predictions of disease spread due to oversimplified brain connectivity models.
method Uses LLMs to synthesize multi-modal relationships and learn disease trajectories from longitudinal data.
result Superior prediction accuracy and interpretability compared to traditional methods.
For many complex diseases, there is a wide variety of ways in which an individual can manifest the disease. The challenge of personalized medicine is to develop tools that can accurately predict the trajectory of an individual's disease, which can in turn enable clinicians to optimize treatments. We represent an indivi…
Study compares machine learning and process-based models for predicting rice blast disease.
problem Predicting rice blast disease to support rice growers in controlling the disease.
method Compared four models: two process-based (Yoshino and WARM) and two machine learning (M5Rules and RNN).
result Machine learning models outperformed process-based models in predicting rice blast disease.
Deep learning improves forecasting of Alzheimer's disease trajectories.
problem Limitations of standard joint models in forecasting disease trajectories over time.
method Adopting a deep learning approach to enhance joint modeling flexibility and scalability.
result Improvements in performance and scalability compared to traditional methods.
DKT transfers biomarker information between neurodegenerative diseases.
problem Estimating biomarker trajectories in rare neurodegenerative diseases with limited data.
method DKT is a joint-disease generative model that transfers biomarker progressions from common neurodegenerative diseases to rare ones.
result DKT estimates plausible multimodal biomarker trajectories in rare diseases like PCA using only unimodal data.
Deep learning boosts rare disease detection from medical claims.
problem Improving diagnosis and treatment of rare diseases.
method Generative adversarial networks (GANs) and recurrent neural networks for sequence modeling.
result Accurate prediction with 0.56 PR-AUC, outperforming benchmarks.
Proposes Ada-Sit method for mortality prediction of rare diseases.
problem Data insufficiency and clinical diversity of rare diseases make mortality prediction hard.
method Initialization-sharing multi-task learning method (Ada-Sit) for fast adaptation to similar tasks.
result Experimental results show the proposed model is effective for mortality prediction of diverse rare diseases.
PASS model predicts disease progression with both accuracy and interpretability.
problem Balancing accurate disease prediction with clinically interpretable models.
method Phased LSTM units with attention mechanism for non-stationary state dynamics.
result PASS model achieves superior predictive accuracy and interpretable representations.
VGAE learns gene-disease associations from networks, predicting disease-genes.
problem Predicting gene-disease associations from disease-gene networks.
method Introducing VGAE, a variational graph auto-encoder for disease-gene prediction.
result VGAE and C-VGAE outperform baseline methods in disease-gene prediction.
Graphical model predicts rare disease physicians, improving accuracy.
problem Identifying rare disease physicians from imbalanced patient data.
method Factor Graph Approach modeling physician and patient features.
result Graphical model outperforms existing targeting methodologies.
Model predicts disease progression using multiple patient health markers.
problem Predicting disease trajectory in chronic diseases with heterogeneity and multiple biomarkers.
method Probabilistic generative model using Gaussian processes and latent class models.
result Model improves predictions of chronic kidney disease progression compared to state of the art.
The paper proposes a deep generative model for complex disease trajectories.
problem Modeling and analyzing complex disease trajectories.
method Deep generative time series approach with semi-supervised latent processes.
result The model can discover novel aspects of diseases and cluster them into new sub-types.
Traditional disease surveillance can be augmented with a wide variety of real-time sources such as, news and social media. However, these sources are in general unstructured and, construction of surveillance tools such as taxonomical correlations and trace mapping involves considerable human supervision. In this paper,…
Bayesian approach models neurodegenerative diseases without clinical labels.
problem Personalized, predictive modeling of neurodegenerative diseases.
method Probabilistic programmed deep kernel learning combining Gaussian processes and neural networks.
result Surpasses deep learning in accuracy and timeliness of predicting neurodegeneration.
VAE detects skin disease anomalies with high accuracy.
problem Anomaly detection in skin disease images.
method Variational Autoencoder (VAE) for deep learning.
result 0.779 AUCROC overall, 0.864 for melanoma, 0.872 for actinic keratosis.
Model predicts future clinical outcomes of progressive diseases.
problem Predicting disease progression with variable patient histories and missing data.
method Probabilistic model using sigmoidal function and approximate Bayesian inference.
result Model accurately predicts clinical scores at future time-points.
Improves disease progression prediction using auxiliary surrogate labels and health markers.
problem Challenges in predicting disease progression due to unknown true disease states.
method Integrates hidden Markov model with time-varying discriminative classification model.
result Significant improvement in distinguishing LBD from AD using objective markers.
This research uses machine learning to identify Alzheimer's disease subtypes and predict progression.
problem Heterogeneity in Alzheimer's disease clinical manifestations and progression rate limit personalized care and treatment planning.
method Unsupervised and supervised machine learning approaches applied to ADNI data.
result Identification of patient subtypes and prediction of disease progression zones.
Model shows screening for infectious disease is hard but Thompson sampling works well.
problem Optimal screening policy for infectious diseases is hard to find.
method Stochastic-control model with Thompson sampling for optimal performance.
result Thompson sampling provides optimal performance guarantees in screening for infectious diseases.
New model predicts banana disease risk from climate data.
problem Managing Black Sigatoka disease under climate change.
method Latent Neural ODEs to model infection dynamics.
result Superior generalization performance up to one month ahead.
Supervised learning improves disease outbreak detection accuracy.
problem Early detection of infectious disease outbreaks to protect public health.
method Developed a supervised learning approach based on hidden Markov models for disease outbreak detection.
result Reduces false positive rate by up to 50% while maintaining sensitivity.
In retrospective assessments, internet news reports have been shown to capture early reports of unknown infectious disease transmission prior to official laboratory confirmation. In general, media interest and reporting peaks and wanes during the course of an outbreak. In this study, we quantify the extent to which med…
Deep learning improves disease trajectory forecasting.
problem Limitations of joint models in forecasting disease trajectories.
method Proposes a deep learning approach to enhance joint modeling.
result Improvements in performance and scalability demonstrated.
HMRNN combines HMMs and neural networks for Alzheimer's disease forecasting.
problem Improving disease progression modeling with hidden states not fully known.
method Developed HMRNN combining HMMs and recurrent neural networks.
result HMRNN improves disease forecasting and offers novel clinical interpretation.
Study improves CAD diagnosis accuracy by selecting significant features.
problem Improving accuracy of CAD diagnosis through feature selection.
method Integrated machine learning approach using random trees (RTs), C5.0, SVM, and CHAID.
result Random trees model outperforms other models in CAD diagnosis.
WEST uses EHRs and expert cases to improve rare disease phenotyping.
problem Limited labeled data for rare diseases.
method Weakly supervised transformer model trained on probabilistic silver-standard labels.
result WEST outperforms existing methods in phenotype classification and subphenotyping.
Deep Rule Forests identifies drug-drug and drug-disease interactions causing AKI.
problem Identifying drug-drug and drug-disease interactions leading to AKI.
method Deep Rule Forests (DRF) algorithm discovering rules from multilayer tree models.
result DRF model outperforms other algorithms in prediction accuracy and interpretability.
Deep EHR predicts chronic diseases using medical notes and structured data.
problem Early detection of chronic diseases for better management and resource allocation.
method Proposes a multi-task framework combining free-text medical notes and structured EHR data using deep learning.
result Deep learning models using text outperform models using only structured data, and models with numerical values and negations in text perform best.
A method to explain disease transformation using biomarker covariance matrices.
problem Understanding disease transformation from a healthy baseline.
method Modeling healthy and disease states of biomarker covariance matrices to characterize perturbations.
result Disease perturbs the biomarker covariance structure, allowing for mechanistic explanations and individual patient prognosis.
Deep Belief Network predicts lncRNA-disease associations with high accuracy.
problem Accurately identifying lncRNA-disease associations to understand lncRNA functionality and disease mechanism.
method Proposes a DBN-based model using heterogeneous networks and DBN for feature learning.
result Obtained AUC of 0.96 and AUPR of 0.967 on standard dataset.
We develop a model to cluster time-series data with interval censoring, improving disease phenotyping.
problem Noise and interval censoring hinder clustering in disease phenotyping.
method Deep generative, continuous-time model that clusters time-series data while correcting for censorship.
result Our model corrects for interval censoring and recovers known clinical subtypes.
Study uses multiview techniques to improve disease classification from health data.
problem Improving disease prediction models using multiple health data components.
method Multiview learning approach with Canonical Correlation Analysis (CCA) to generate features from different data views.
result Multiview representations enhance disease classification performance.
Machine learning models predict hematologic diseases with high accuracy.
problem Accurate medical diagnosis of hematologic diseases.
method Built two machine learning models using blood test results.
result Models achieved high prediction accuracy (0.88 and 0.86) for five diseases, and 0.59 and 0.57 for the most probable disease.
Medical researchers are coming to appreciate that many diseases are in fact complex, heterogeneous syndromes composed of subpopulations that express different variants of a related complication. Time series data extracted from individual electronic health records (EHR) offer an exciting new way to study subtle differen…
Graph convolution model uses self-attention to predict diseases from multi-modal data.
problem Predicting diseases from diverse multi-modal data.
method Graph convolution with self-attention layer.
result Significantly outperforms state-of-the-art methods in disease prediction.
Deep learning predicts Alzheimer's Disease progression with high accuracy.
problem Predicting multiple aspects of Alzheimer's Disease progression.
method Unsupervised deep learning on 1908 patients' 18-month clinical data.
result Model accurately predicts ADAS-Cog scores and identifies word recall as a predictor.
New method clusters disease subtypes from model explanations.
problem Discovering disease subtypes in noisy, high-dimensional data.
method Train classifier, extract explanations, cluster in explanation space.
result Cluster analysis on model explanations outperforms classical methods.
Paper predicts multiple types of miRNA-disease associations using tensor decomposition.
problem Predicting miRNA-disease associations, especially multi-type ones.
method Represented miRNA-disease-type triplets as a tensor and used Tensor Decomposition methods.
result Tensor Decomposition methods improve a recent baseline by up to 38% in top-1 F1.
Generative model for SSc disease trajectories using deep learning.
problem Modeling complex disease trajectories in Systemic Sclerosis.
method Semi-supervised deep generative model with latent temporal processes.
result Learned latent processes enable personalized monitoring and prediction.
Medusa detects significant modules in diverse biological data, improving gene-disease association predictions.
problem Ignoring semantic meanings in data modeling limits the value of diverse biological data.
method Medusa combines collective matrix factorization with submodular optimization to detect significant modules.
result Medusa outperforms methods ignoring semantic meanings in predicting gene-disease associations.