Cynthia Rudin's research while affiliated with Duke University and other places
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Publications (248)
Objectives: Epileptiform activity (EA) worsens outcomes in patients with acute brain injuries (e.g., aneurysmal subarachnoid hemorrhage [aSAH]). Randomized trials (RCTs) assessing anti-seizure interventions are needed. Due to scant drug efficacy data and ethical reservations with placebo utilization, RCTs are lacking or hindered by design constrain...
Background:
HIV infection remains incurable due to the persistence of a viral reservoir despite antiretroviral therapy (ART). Cannabis (CB) use is prevalent amongst people with HIV (PWH), but the impact of CB on the latent HIV reservoir has not been investigated.
Methods:
Peripheral blood cells from a cohort of PWH who use CB and a matched cohor...
Polymers are ubiquitous to almost every aspect of modern society and their use in medical products is similarly pervasive. Despite this, the diversity in commercial polymers used in medicine is stunningly low. Considerable time and resources have been extended over the years towards the development of new polymeric biomaterials which address unmet...
We study the problem of predicting congestion risk in intensive care units (ICUs). Congestion is associated with poor service experience, high costs, and poor health outcomes. By predicting future congestion, decision makers can initiate preventive measures, such as rescheduling activities or increasing short-term capacity, to mitigate the effects...
Smart watches and other wearable devices are equipped with photoplethysmography (PPG) sensors for monitoring heart rate and other aspects of cardiovascular health. However, PPG signals collected from such devices are susceptible to corruption from noise and motion artifacts, which cause errors in heart rate estimation. Typical denoising approaches...
Photoplethysmography (PPG) provides a low-cost, non-invasive method to continuously monitor various cardiovascular parameters. PPG signals are generated by wearable devices and frequently contain large artifacts caused by external factors, such as motion of the human subject. In order to ensure robust and accurate extraction of physiological parame...
Experimental and observational studies often lack validity due to untestable assumptions. We propose a double machine learning approach to combine experimental and observational studies, allowing practitioners to test for assumption violations and estimate treatment effects consistently. Our framework tests for violations of external validity and i...
Additive manufacturing has provided the ability to manufacture complex structures using a wide variety of materials and geometries. Structures such as triply periodic minimal surface (TPMS) lattices have been incorporated into products across many fields due to their unique combinations of mechanical, geometric, and physical properties. Yet, the ne...
Regression trees are one of the oldest forms of AI models, and their predictions can be made without a calculator, which makes them broadly useful, particularly for high-stakes applications. Within the large literature on regression trees, there has been little effort towards full provable optimization, mainly due to the computational hardness of t...
Background
Epileptiform activity is associated with worse patient outcomes, including increased risk of disability and death. However, the effect of epileptiform activity on neurological outcome is confounded by the feedback between treatment with antiseizure medications and epileptiform activity burden. We aimed to quantify the heterogeneous effec...
Advancements in additive manufacturing (AM) technology and three-dimensional (3D) modeling software have enabled the fabrication of parts with combinations of properties that were impossible to achieve with traditional manufacturing techniques. Porous designs such as truss-based and sheet-based lattices have gained much attention in recent years du...
Missing values are a fundamental problem in data science. Many datasets have missing values that must be properly handled because the way missing values are treated can have large impact on the resulting machine learning model. In medical applications, the consequences may affect healthcare decisions. There are many methods in the literature for de...
We consider an important problem in scientific discovery, identifying sparse governing equations for nonlinear dynamical systems. This involves solving sparse ridge regression problems to provable optimality in order to determine which terms drive the underlying dynamics. We propose a fast algorithm, OKRidge, for sparse ridge regression, using a no...
We introduce Matched Machine Learning, a framework that combines the flexibility of machine learning black boxes with the interpretability of matching, a longstanding tool in observational causal inference. Interpretability is paramount in many high-stakes application of causal inference. Current tools for nonparametric estimation of both average a...
In real applications, interaction between machine learning model and domain experts is critical; however, the classical machine learning paradigm that usually produces only a single model does not facilitate such interaction. Approximating and exploring the Rashomon set, i.e., the set of all near-optimal models, addresses this practical challenge b...
Our goal is to produce methods for observational causal inference that are auditable, easy to troubleshoot, yield accurate treatment effect estimates, and scalable to high-dimensional data. We describe an almost-exact matching approach that achieves these goals by (i) learning a distance metric via outcome modeling, (ii) creating matched groups usi...
HIV infection remains incurable due to the persistence of a viral reservoir during antiretroviral therapy. Cannabis (CB) use is prevalent amongst people with HIV (PWH), but the impact of CB on the latent HIV reservoir has not been investigated. Peripheral CD4 and CD8 T cells from a cohort of CB-using PWH and a matched cohort of non-users on antiret...
Regression trees are one of the oldest forms of AI models, and their predictions can be made without a calculator, which makes them broadly useful, particularly for high-stakes applications. Within the large literature on regression trees, there has been little effort towards full provable optimization, mainly due to the computational hardness of t...
Regression trees are one of the oldest forms of AI models, and their predictions can be made without a calculator, which makes them broadly useful, particularly for high-stakes applications. Within the large literature on regression trees, there has been little effort towards full provable optimization, mainly due to the computational hardness of t...
IMPORTANCE: An interpretable machine learning model can provide faithful explanations of each prediction and yet maintain higher performance than its black box counterpart. OBJECTIVE: To design an interpretable machine learning model which accurately predicts EEG protopatterns while providing an explanation of its predictions with assistance of a s...
Obtaining large-scale well-annotated is always a daunting challenge, especially in the medical research domain because of the shortage of domain expert. Instead of human annotation, in this work, we use the alarm information generated from bed-side monitor to get the pseudo label for the co-current photoplethysmography (PPG) signal. Based on this s...
Background: The combination of time-lapse imaging and artificial intelligence (AI) offers novel potential for embryo assessment by allowing a vast quantity of image data to be analysed via machine learning. Most algorithms developed to date have used neural networks which are uninterpretable (“black-box”) and cannot be understood by doctors, embryo...
Unquantified sources of uncertainty in observational causal analyses can break the integrity of the results. One would never want another analyst to repeat a calculation with the same data set, using a seemingly identical procedure, only to find a different conclusion. However, as we show in this work, there is a typical source of uncertainty that...
Sparse decision trees are one of the most common forms of interpretable models. While recent advances have produced algorithms that fully optimize sparse decision trees for prediction, that work does not address policy design, because the algorithms cannot handle weighted data samples. Specifically, they rely on the discreteness of the loss functio...
Over the last century, risk scores have been the most popular form of predictive model used in healthcare and criminal justice. Risk scores are sparse linear models with integer coefficients; often these models can be memorized or placed on an index card. Typically, risk scores have been created either without data or by rounding logistic regressio...
Black box machine learning models can be dangerous for high-stakes decisions. They rely on untrustworthy databases, and their predictions are difficult to troubleshoot, explain and error check for real-time predictions. Their use leads to serious ethics and accountability issues.
Sparse decision trees are one of the most common forms of interpretable models. While recent advances have produced algorithms that fully optimize sparse decision trees for prediction, that work does not address policy design, because the algorithms cannot handle weighted data samples. Specifically, they rely on the discreteness of the loss functio...
Given thousands of equally accurate machine learning (ML) models, how can users choose among them? A recent ML technique enables domain experts and data scientists to generate a complete Rashomon set for sparse decision trees--a huge set of almost-optimal interpretable ML models. To help ML practitioners identify models with desirable properties fr...
In any given machine learning problem, there may be many models that could explain the data almost equally well. However, most learning algorithms return only one of these models, leaving practitioners with no practical way to explore alternative models that might have desirable properties beyond what could be expressed within a loss function. The...
Machine learning models can assist with metamaterials design by approximating computationally expensive simulators or solving inverse design problems. However, past work has usually relied on black box deep neural networks, whose reasoning processes are opaque and require enormous datasets that are expensive to obtain. In this work, we develop two...
Despite the success of antiretroviral therapy, HIV cannot be cured because of a reservoir of latently infected cells that evades therapy. To understand the mechanisms of HIV latency, we employed an integrated single-cell RNA-seq/ATAC-seq approach to simultaneously profile the transcriptomic and epigenomic characteristics of ~4000 latently infected...
Dimension reduction (DR) algorithms project data from high dimensions to lower dimensions to enable visualization of interesting high-dimensional structure. DR algorithms are widely used for analysis of single-cell transcriptomic data. Despite widespread use of DR algorithms such as t-SNE and UMAP, these algorithms have characteristics that lead to...
Sparse decision tree optimization has been one of the most fundamental problems in AI since its inception and is a challenge at the core of interpretable machine learning. Sparse decision tree optimization is computationally hard, and despite steady effort since the 1960's, breakthroughs have been made on the problem only within the past few years,...
After a person is arrested and charged with a crime, they maybe released on bail and required to participate in a commu-nity supervision program while awaiting trial. These ‘pre-trial programs’ are common throughout the United States, butvery little research has demonstrated their effectiveness. Re-searchers have emphasized the need for more rigoro...
Visual concept discovery has long been deemed important to improve interpretability of neural networks, because a bank of semantically meaningful concepts would provide us with a starting point for building machine learning models that exhibit intelligible reasoning process. Previous methods have disadvantages: either they rely on labelled support...
Objectives
We study interpretable recidivism prediction using machine learning (ML) models and analyze performance in terms of prediction ability, sparsity, and fairness. Unlike previous works, this study trains interpretable models that output probabilities rather than binary predictions, and uses quantitative fairness definitions to assess the mo...
Many fundamental problems affecting the care of critically ill patients lead to similar analytical challenges: physicians cannot easily estimate the effects of at-risk medical conditions or treatments because the causal effects of medical conditions and drugs are entangled. They also cannot easily perform studies: there are not enough high-quality...
We present fast classification techniques for sparse generalized linear and additive models. These techniques can handle thousands of features and thousands of observations in minutes, even in the presence of many highly correlated features. For fast sparse logistic regression, our computational speed-up over other best-subset search techniques owe...
The last decade has seen an explosion of machine learning (ML) applications in healthcare with mixed and sometimes harmful results, despite much promise and associated hype (Heaven, 2020). A significant reason for these reverses is the premature implementation of machine learning algorithms into clinical practice. In this paper we argue the critica...
We present fast classification techniques for sparse generalized linear and additive models. These techniques can handle thousands of features and thousands of observations in minutes, even in the presence of many highly correlated features. For fast sparse logistic regression, our computational speed-up over other best-subset search techniques owe...
Sparse decision tree optimization has been one of the most fundamental problems in AI since its inception and is a challenge at the core of interpretable machine learning. Sparse decision tree optimization is computationally hard, and despite steady effort since the 1960's, breakthroughs have only been made on the problem within the past few years,...
Interpretability in machine learning models is important in high-stakes decisions such as whether to order a biopsy based on a mammographic exam. Mammography poses important challenges that are not present in other computer vision tasks: datasets are small, confounding information is present and it can be difficult even for a radiologist to decide...
Objective:
Wearable devices equipped with plethysmography (PPG) sensors provided a low-cost, long-term solution to early diagnosis and continuous screening of heart conditions. However PPG signals collected from such devices often suffer from corruption caused by artifacts. The objective of this study is to develop an effective supervised algorith...
Metamaterials are composite materials with engineered geometrical micro- and meso-structures that can lead to uncommon physical properties, like negative Poisson's ratio or ultra-low shear resistance. Periodic metamaterials are composed of repeating unit-cells, and geometrical patterns within these unit-cells influence the propagation of elastic or...
Artificial Intelligence (AI) techniques are starting to be used in IVF, in particular for selecting which embryos to transfer to the woman. AI has the potential to process complex data sets, to be better at identifying subtle but important patterns, and to be more objective than humans when evaluating embryos. However, a current review of the liter...
Algorithmic harmonization - the automated harmonization of a musical piece given its melodic line - is a challenging problem that has garnered much interest from both music theorists and computer scientists. One genre of particular interest is the four-part Baroque chorales of J.S. Bach. Methods for algorithmic chorale harmonization typically adopt...
Study question
What are the epistemic and ethical considerations of clinically implementing Artificial Intelligence (AI) algorithms in embryo selection?
Summary answer
AI embryo selection algorithms used to date are “black-box” models with significant epistemic and ethical issues, and there are no trials assessing their clinical effectiveness.
Wh...
When we deploy machine learning models in high-stakes medical settings, we must ensure these models make accurate predictions that are consistent with known medical science. Inherently interpretable networks address this need by explaining the rationale behind each decision while maintaining equal or higher accuracy compared to black-box models. In...
Limerick generation exemplifies some of the most difficult challenges faced in poetry generation, as the poems must tell a story in only five lines, with constraints on rhyme, stress, and meter. To address these challenges, we introduce LimGen, a novel and fully automated system for limerick generation that outperforms state-of-the-art neural netwo...
Lending decisions are usually made with proprietary models that provide minimally acceptable explanations to users. In a future world without such secrecy, what decision support tools would one want to use for justified lending decisions? This question is timely, since the economy has dramatically shifted due to a pandemic, and a massive number of...
We present our entry into the 2021 3C Shared Task Citation Context Classification based on Purpose competition. The goal of the competition is to classify a citation in a scientific article based on its purpose. This task is important because it could potentially lead to more comprehensive ways of summarizing the purpose and uses of scientific arti...
Although board games and video games have been studied for decades in artificial intelligence research, challenging word games remain relatively unexplored. Word games are not as constrained as games like chess or poker. Instead, word game strategy is defined by the players’ understanding of the way words relate to each other. The word game Codenam...
Lending decisions are usually made with proprietary models that provide minimally acceptable explanations to users. In a future world without such secrecy, what decision support tools would one want to use for justified lending decisions? This question is timely, since the economy has dramatically shifted due to a pandemic, and a massive number of...
Although board games and video games have been studied for decades in artificial intelligence research, challenging word games remain relatively unexplored. Word games are not as constrained as games like chess or poker. Instead, word game strategy is defined by the players' understanding of the way words relate to each other. The word game Codenam...
AI has the potential to revolutionize many areas of healthcare. Radiology, dermatology, and ophthalmology are some of the areas most likely to be impacted in the near future, and they have received significant attention from the broader research community. But AI techniques are now also starting to be used in in vitro fertilization (IVF), in partic...
Interpretability in machine learning models is important in high-stakes decisions, such as whether to order a biopsy based on a mammographic exam. Mammography poses important challenges that are not present in other computer vision tasks: datasets are small, confounding information is present, and it can be difficult even for a radiologist to decid...
Interpretability in machine learning (ML) is crucial for high stakes decisions and troubleshooting. In this work, we provide fundamental principles for interpretable ML, and dispel common misunderstandings that dilute the importance of this crucial topic. We also identify 10 technical challenge areas in interpretable machine learning and provide hi...
In retail, there are predictable yet dramatic time-dependent patterns in customer behavior, such as periodic changes in the number of visitors, or increases in customers just before major holidays. The standard paradigm of multi-armed bandit analysis does not take these known patterns into account. This means that for applications in retail, where...
Limerick generation exemplifies some of the most difficult challenges faced in poetry generation, as the poems must tell a story in only five lines, with constraints on rhyme, stress, and meter. To address these challenges, we introduce LimGen, a novel and fully automated system for limerick generation that outperforms state-of-the-art neural netwo...
In retail, there are predictable yet dramatic time-dependent patterns in customer behavior, such as periodic changes in the number of visitors, or increases in customers just before major holidays. The current paradigm of multi-armed bandit analysis does not take these known patterns into account. This means that for applications in retail, where p...
dame-flame is a Python package for performing matching for observational causal inference on datasets containing discrete covariates. This package implements the Dynamic Almost Matching Exactly (DAME) and Fast Large-Scale Almost Matching Exactly (FLAME) algorithms, which match treatment and control units on subsets of the covariates. The resulting...
