AI framework uses multi-omics data to personalize cancer treatment suggestions.
problem Leveraging AI for personalized cancer treatment based on complex patient characteristics.
method Modular machine learning framework trained on diverse multi-omics technologies.
result Superior performance in personalized counterfactual treatment suggestions.
PDX studies help personalize cancer treatment.
problem Precision medicine in cancer treatment.
method Machine learning methods for estimating optimal ITRs from PDX data.
result Superlearner approach combining multiple ITRs improves personalized treatment recommendations.
Modeling correlated mutations in cancer for personalized treatment.
problem Identifying mutations for personalized cancer therapy in heterogeneous profiles.
method Proposed correlated zero-inflated negative binomial process with mixed beta-Bernoulli and variational inference.
result Identified biologically relevant correlations between somatic mutations.
LI-ITR combines flexible ML with interpretable approximations for personalized treatment rules.
problem Combining flexibility and interpretability in personalized treatment rules.
method Uses variational autoencoders and a mixture of interpretable experts.
result Accurately recovers true local coefficients and optimal treatment strategies.
Reinforcement learning algorithms are gaining popularity in fields in which optimal scheduling is important, and oncology is not an exception. The complex and uncertain dynamics of cancer limit the performance of traditional model-based scheduling strategies like Optimal Control. Motivated by the recent success of mode…
A new algorithm learns optimal personalized treatment plans online with low regret.
problem Learning optimal dynamic treatment regimes in an online setting.
method Developed a novel algorithm balancing exploration and exploitation for rate-optimal regret.
result Guaranteed rate-optimal regret for linear transition and reward models.
IA-BMA adapts model weights to inputs for better predictions.
problem Predicting with multiple models in heterogeneous settings.
method Input adaptive Bayesian Model Averaging (IA-BMA) with an input adaptive prior and amortized variational inference.
result IA-BMA consistently delivers more accurate and better-calibrated predictions.
Dr.S recommends cancer drugs based on genomic data.
problem Personalizing cancer treatments using genomic information.
method Machine learning to identify optimal drug-gene associations.
result Developed a Drug Recommendation System (Dr.S) for cancer cell lines.
Deep neural network improves cancer mutation calls with confidence.
problem Improving accuracy and confidence in somatic variant calls from cancer sequencing.
method Deep Bayesian Recurrent Neural Network (RNN) with flexible priors.
result Enhanced confidence in mutation calls without performance degradation.
Study uses LLMs to create personalized treatment plans for rare gynecological tumors.
problem Suboptimal management and poor prognosis due to low incidence and heterogeneity of rare gynecological tumors.
method Developed a digital twin system using LLMs to integrate clinical and biomarker data.
result LLM-enabled digital twins efficiently model individual patient trajectories and identify potential treatment options.
We propose a Bayesian model that predicts recovery curves based on information available before the disruptive event. A recovery curve of interest is the quantified sexual function of prostate cancer patients after prostatectomy surgery. We illustrate the utility of our model as a pre-treatment medical decision aid, pr…
Personalized treatment of patients based on tissue-specific cancer subtypes has strongly increased the efficacy of the chosen therapies. Even though the amount of data measured for cancer patients has increased over the last years, most cancer subtypes are still diagnosed based on individual data sources (e.g. gene exp…
We estimate treatment cost-savings from early cancer diagnosis. For breast, lung, prostate and colorectal cancers and melanoma, which account for more than 50% of new incidences projected in 2017, we combine published cancer treatment cost estimates by stage with incidence rates by stage at diagnosis. We extrapolate to…
Framework generates personalized insulin treatment strategies using deep models.
problem Developing optimal personalized treatment strategies for diabetes patients.
method Combines deep generative time series models with decision theory.
result Demonstrated improved personalized insulin treatment strategies for diabetes patients.
Improving cancer treatment decisions requires considering causal effects, not just model accuracy.
problem Cancer outcome prediction models may cause harm when used for treatment decisions.
method Explains the importance of considering causal effects in model validation and provides guidelines.
result Building and validating models that are useful for decision making requires considering causal effects.
In this work, we investigate the importance of ethnicity in colorectal cancer survivability prediction using machine learning techniques and the SEER cancer incidence database. We compare model performances for 2-year survivability prediction and feature importance rankings between Hispanic, White, and mixed patient po…
We consider a problem of ranking and selection via simulation in the context of personalized decision making, where the best alternative is not universal but varies as a function of some observable covariates. The goal of ranking and selection with covariates (R&S-C) is to use simulation samples to obtain a selection p…
System interprets complex treatment effects for personalized policies.
problem Complex, hard-to-understand treatment effect models.
method Scalable, interpretable personalized experimentation system.
result Learned explanations and generated interpretable policies.
CAST models time-varying treatment effects in cancer patients.
problem Estimating treatment effects at fixed time points limits understanding of dynamic changes over time.
method CAST combines parametric and non-parametric methods to model continuous time-varying treatment effects.
result CAST reveals how treatment effects rise, peak, and decline over the follow-up period.
New methods optimize personalized treatment assignment in trials with many arms.
problem Poor performance of standard methods in trials with many treatment arms.
method Regularized and clustered joint assignment forest algorithm.
result Gains in predicting arm-wise outcomes and utility gains from personalization.
Paper presents a machine learning method to predict cancer sub-clones.
problem Predicting the growth of sub-clones in cancer tumors.
method Data-driven machine learning approach to capture sub-clonal characteristics.
result Machine learning can predict which sub-clones are more likely to grow.
Cancer is one of the leading cause of death, worldwide. Many believe that genomic data will enable us to better predict the survival time of these patients, which will lead to better, more personalized treatment options and patient care. As standard survival prediction models have a hard time coping with the high-dimen…
New method evaluates personalized treatment in critical care, robust to death.
problem Truncation by death in critical care makes traditional DTR evaluation ineffective.
method Principal stratification-based approach, focusing on always-survivor value function, with a semiparametrically efficient, multiply robust estimator.
result Demonstrates robustness and efficiency of the method for personalized treatment optimization.
Study uses machine learning to predict heart failure in cancer patients.
problem Early detection of cancer patients at risk for cardiotoxicity.
method Examined four machine learning algorithms on 143,199 cancer patients.
result Gradient boosting model achieved best AUC score of 0.9077.
Personalized models explain TB treatment outcomes considering patient context.
problem Heterogeneity in TB treatment outcomes due to co-morbidities.
method Multi-task learning approach encoding patient context into personalized models.
result Identifies anemia, age of onset, and HIV as influential for treatment efficacy.
The objectives of this "perspective" paper are to review some recent advances in sparse feature selection for regression and classification, as well as compressed sensing, and to discuss how these might be used to develop tools to advance personalized cancer therapy. As an illustration of the possibilities, a new algor…
Bayesian neural networks improve cancer dynamics prediction.
problem Predicting cancer dynamics under treatment due to heterogeneity and sparse data.
method Hierarchical Bayesian model using baseline covariates and Bayesian neural networks for nonlinear interactions.
result Bayesian neural networks outperform linear models in predicting cancer dynamics with interactions.
Study assesses whether RL algorithm personalizes treatment sequences.
problem Evaluate if RL algorithm truly personalizes treatment sequences.
method Resampling-based methodology to investigate personalization.
result RL algorithm's personalization may be due to stochasticity.
Optimal treatment regimes (OTR) are individualised treatment assignment strategies that identify a medical treatment as optimal given all background information available on the individual. We discuss Bayes optimal treatment regimes estimated using a loss function defined on the bivariate distribution of dichotomous po…
Personalized cancer vaccines are envisioned as the next generation rational cancer immunotherapy. The key step in developing personalized therapeutic cancer vaccines is to identify tumor-specific neoantigens that are on the surface of tumor cells. A promising method for this is through de novo peptide sequencing from m…
Unified survey of treatment effect heterogeneity and uplift modeling methods.
problem Estimating heterogeneous treatment effects and uplift modeling.
method Unified survey of treatment effect heterogeneity and uplift modeling approaches.
result Unified notations for comparing methods and applications in personalized marketing, medicine, and social studies.
Deep learning predicts response to HER2-targeted breast cancer therapy.
problem Predicting response to HER2-targeted neoadjuvant chemotherapy.
method Developed and validated a deep learning approach using pre-treatment dynamic breast MRI.
result Deep learning model achieved strong performance in predicting pathological complete response.
We study the problem of learning to choose from m discrete treatment options (e.g., news item or medical drug) the one with best causal effect for a particular instance (e.g., user or patient) where the training data consists of passive observations of covariates, treatment, and the outcome of the treatment. The standa…
Causal ML predicts treatment outcomes, aiding personalized medicine.
problem Predicting individualized treatment effects for personalized medicine.
method Flexible, data-driven methods using causal inference with clinical trial and real-world data.
result Causal ML allows for estimating individualized treatment effects.
Proposes efficient data acquisition for personalized treatment effects from observational data.
problem Efficiently acquiring outcomes for personalized treatment effects in observational studies.
method Introduces causal, Bayesian acquisition functions to select points with overlapping support.
result Demonstrates improved sample efficiency and accuracy in learning personalized treatment effects.
The personalization of treatment via bio-markers and other risk categories has drawn increasing interest among clinical scientists. Personalized treatment strategies can be learned using data from clinical trials, but such trials are very costly to run. This paper explores the use of active learning techniques to desig…
Interventional cancer clinical trials are generally too restrictive, and some patients are often excluded on the basis of comorbidity, past or concomitant treatments, or the fact that they are over a certain age. The efficacy and safety of new treatments for patients with these characteristics are, therefore, not defin…
In many mobile health interventions, treatments should only be delivered in a particular context, for example when a user is currently stressed, walking or sedentary. Even in an optimal context, concerns about user burden can restrict which treatments are sent. To diffuse the treatment delivery over times when a user i…
Study identifies biomarkers for lung cancer in female non-smokers.
problem Identifying prognostic biomarkers for stage III NSCLC in non-smoking females.
method Gene expression profiling and XGBoost machine learning algorithm.
result Top biomarkers validated in literature, with AUC score of 0.835.
Model predicts anti-cancer drug responses using gene and molecular data.
problem Expensive and time-consuming cancer drug discovery and tailoring.
method Uses variational autoencoders and multi-layer perceptrons to encode gene expression and drug data.
result High average R2 of 0.83 and 0.845 in predicting drug responses for breast and pan-cancer cell lines, respectively. The causal effect of a treatment can vary from person to person based on their individual characteristics and predispositions. Mining for patterns of individual-level effect differences, a problem known as heterogeneous treatment effect estimation, has many important applications, from precision medicine to recommender…
Paper uses stats to predict treatment choice based on illness probability.
problem Improving treatment decision-making in personalized medicine.
method Statistical decision theory with maximum regret evaluation.
result Estimates illness probability for better treatment choice.
New method uses probabilistic independence to discover disease signatures from medical records.
problem Insufficiently precise diagnosis of clinical disease leading to treatment failures.
method Unsupervised machine learning using probabilistic independence to disentangle disease patterns.
result Inferred 2000 clinical disease signatures from medical records, improving cancer prediction.
Develops deep jump learning for continuous treatment OPE.
problem Estimating mean outcomes under new treatment rules using historical data from different rules.
method Adaptive deep discretization of continuous treatment space using deep learning and multi-scale change point detection.
result Validated method through theoretical results, simulations, and real application to Warfarin Dosing.
RL algorithms with medical integration improve personalized treatment recommendations.
problem Developing effective personalized treatment strategies for chronic diseases.
method Integrating medical knowledge into RL algorithms for DTR.
result Enhanced treatment recommendations with increased confidence.
The paper clarifies the distinction between CATE and ITE under ignorability assumptions.
problem Confusion between CATE and ITE hinders personalized effect estimation.
method Clarifies the distinction between CATE and ITE under ignorability assumptions.
result CATE and ITE are not necessarily the same under ignorability assumptions.
Estimating the effect of a treatment on a given outcome, conditioned on a vector of covariates, is central in many applications. However, learning the impact of a treatment on a continuous temporal response, when the covariates suffer extensively from measurement error and even the timing of the treatments is uncertain…
Bayesian framework improves survival prediction accuracy and uncertainty quantification.
problem Inaccurate uncertainty estimates in survival models.
method Bayesian framework combining variational inference, neural multi-task logistic regression, and sparsity-inducing prior.
result Better quantification of survival uncertainty and more accurate predictions.