Scholars@Duke
Samuel Berchuck

Samuel Berchuck

Assistant Professor of Biostatistics & Bioinformatics
Biostatistics & Bioinformatics, Division of Translational Biomedical
sib2@duke.edu
DUMC Box 2721, Durham, NC 27710
2424 Erwin Rd, Hock Plaza, 9th Floor, Office 9028, Durham, NC 27705

Selected Publications

Enhancing early autism prediction based on electronic records using clinical narratives.

Journal Article J Biomed Inform · August 2023 Recent work has shown that predictive models can be applied to structured electronic health record (EHR) data to stratify autism likelihood from an early age (<1 year). Integrating clinical narratives (or notes) with structured data has been shown to impro ... Full text Link to item Cite

Identifying Risk Factors for Blindness From Glaucoma at First Presentation to a Tertiary Clinic.

Conference Am J Ophthalmol · June 2023 PURPOSE: Glaucoma is the leading cause of irreversible blindness, a crippling disability resulting in higher risks of chronic health conditions. To better understand disparities in blindness risk, we identified risk factors of blindness on first presentati ... Full text Link to item Cite

mHealth Coping Skills Training for Symptom Management (mCOPE) for colorectal cancer patients in early to mid-adulthood: Study protocol for a randomized controlled trial.

Journal Article Contemp Clin Trials Commun · June 2023 BACKGROUND: Colorectal cancer (CRC) patients in early to mid-adulthood (≤50 years) are challenged by high symptom burden (i.e., pain, fatigue, distress) and age-related stressors (e.g., managing family, work). Cognitive behavioral theory (CBT)-based coping ... Full text Link to item Cite

Predictive Value of Early Autism Detection Models Based on Electronic Health Record Data Collected Before Age 1 Year.

Journal Article JAMA network open · February 2023 ImportanceAutism detection early in childhood is critical to ensure that autistic children and their families have access to early behavioral support. Early correlates of autism documented in electronic health records (EHRs) during routine care co ... Full text Cite

Predictive Accuracy of Stroke Risk Prediction Models Across Black and White Race, Sex, and Age Groups.

Journal Article JAMA · January 24, 2023 IMPORTANCE: Stroke is the fifth-highest cause of death in the US and a leading cause of serious long-term disability with particularly high risk in Black individuals. Quality risk prediction algorithms, free of bias, are key for comprehensive prevention st ... Full text Link to item Cite

Hybrid-delivered cognitive behavioral symptom management and activity coaching intervention for patients undergoing hematopoietic stem cell transplant: Findings from intervention development and a pilot randomized trial.

Journal Article J Psychosoc Oncol · 2023 OBJECTIVE: Develop and pilot test a mobile health (mHealth) cognitive behavioral coping skills training and activity coaching protocol (HCT Symptoms and Steps) for hematopoietic stem cell transplant (HCT) patients. DESIGN: Two-phase, mixed methods study. S ... Full text Link to item Cite

Intraocular Pressure and Rates of Macular Thinning in Glaucoma.

Journal Article Ophthalmol Glaucoma · 2023 PURPOSE: To evaluate the effect of intraocular pressure (IOP) on the rates of macular thickness (ganglion cell layer [GCL] and ganglion cell-inner plexiform layer [GCIPL]) change over time measured by spectral-domain (SD) OCT. DESIGN: Retrospective cohort ... Full text Link to item Cite

A Framework for Automating Psychiatric Distress Screening in Ophthalmology Clinics Using an EHR-Derived AI Algorithm.

Journal Article Transl Vis Sci Technol · October 3, 2022 PURPOSE: In patients with ophthalmic disorders, psychosocial risk factors play an important role in morbidity and mortality. Proper and early psychiatric screening can result in prompt intervention and mitigate its impact. Because screening is resource int ... Full text Link to item Cite

Longitudinal visual field variability and the ability to detect glaucoma progression in black and white individuals.

Journal Article Br J Ophthalmol · August 2022 BACKGROUND/AIMS: To investigate racial differences in the variability of longitudinal visual field testing in a 'real-world' clinical population, evaluate how these differences are influenced by socioeconomic status, and estimate the impact of differences ... Full text Link to item Cite

Atrial branch coronary artery stenosis as a mechanism for atrial fibrillation.

Journal Article Heart Rhythm · August 2022 BACKGROUND: The etiology of atrial fibrillation (AF) is multifactorial and incompletely understood. OBJECTIVE: The purpose of this study was to evaluate the association between coronary artery disease (CAD) affecting atrial tissue and AF. METHODS: Patients ... Full text Link to item Cite

Blood Pressure and Glaucomatous Progression in a Large Clinical Population.

Journal Article Ophthalmology · February 2022 PURPOSE: To investigate the effect of systemic arterial blood pressure (BP) on rates of progressive structural damage over time in glaucoma. DESIGN: Retrospective cohort study. PARTICIPANTS: A total of 7501 eyes of 3976 subjects with glaucoma or suspected ... Full text Link to item Cite

Rates of Glaucoma Progression Derived from Linear Mixed Models Using Varied Random Effect Distributions.

Journal Article Transl Vis Sci Technol · February 1, 2022 PURPOSE: To compare the ability of linear mixed models with different random effect distributions to estimate rates of visual field loss in glaucoma patients. METHODS: Eyes with five or more reliable standard automated perimetry (SAP) tests were identified ... Full text Link to item Cite

Patterns of Health Services Use Before Age 1 in Children Later Diagnosed With ADHD.

Journal Article J Atten Disord · October 2021 Background: Children with ADHD have 2 to 3 times increased health care utilization and annual costs once diagnosed, but little is known about utilization patterns early in life, prior to diagnosis. Quantifying early health services use among children later ... Full text Link to item Cite

Impact of anxiety and depression on progression to glaucoma among glaucoma suspects.

Journal Article Br J Ophthalmol · September 2021 AIMS: To assess the impact of anxiety and depression in the risk of converting to glaucoma in a cohort of glaucoma suspects followed over time. METHODS: The study included a retrospective cohort of subjects with diagnosis of glaucoma suspect at baseline, e ... Full text Link to item Cite

Rapid initial OCT RNFL thinning is predictive of faster visual field loss during extended follow-up in glaucoma.

Journal Article Am J Ophthalmol · September 2021 PURPOSE: To investigate the relationship between the rate of retinal nerve fiber layer (RNFL) loss during initial follow-up and the magnitude of associated visual field loss during an extended follow-up period. DESIGN: Retrospective cohort study. METHODS: ... Full text Link to item Cite

A Community Partnership to House and Care for Complex Patients with Unstable Housing.

Journal Article NEJM Catal Innov Care Deliv · August 2021 Rising homelessness, especially among older adults, has significant ramifications for our health care system. People experiencing homelessness tend to experience worse health and poorer access to needed health care than people with stable housing. Commonwe ... Full text Link to item Cite

Comparative effectiveness of oral anticoagulants in everyday practice.

Journal Article Heart · May 26, 2021 OBJECTIVES: This study evaluated the comparative effectiveness of vitamin K antagonists (VKAs), direct thrombin inhibitors (DTIs) and factor Xa inhibitors (FXaI) in patients with atrial fibrillation (AF) at risk of stroke in everyday practice. METHODS: Dat ... Full text Link to item Cite

Rates of Glaucomatous Structural and Functional Change From a Large Clinical Population: The Duke Glaucoma Registry Study.

Journal Article Am J Ophthalmol · February 2021 PURPOSE: To investigate rates of structural and functional change in a large clinical population of glaucoma and glaucoma suspect patients. DESIGN: Retrospective cohort. METHODS: Twenty-nine thousand five hundred forty-eight spectral-domain optical coheren ... Full text Link to item Cite

An objective structural and functional reference standard in glaucoma.

Journal Article Sci Rep · January 18, 2021 The current lack of consensus for diagnosing glaucoma makes it difficult to develop diagnostic tests derived from deep learning (DL) algorithms. In the present study, we propose an objective definition of glaucomatous optic neuropathy (GON) using clearly d ... Full text Link to item Cite

Impact of Intraocular Pressure Control on Rates of Retinal Nerve Fiber Layer Loss in a Large Clinical Population.

Journal Article Ophthalmology · January 2021 PURPOSE: To investigate the impact of intraocular pressure (IOP) control on rates of change of spectral-domain OCT (SD-OCT) retinal nerve fiber layer (RNFL) thickness in a large clinical population. DESIGN: Retrospective cohort study. PARTICIPANTS: A total ... Full text Link to item Cite

Effect of Diabetes Control on Rates of Structural and Functional Loss in Patients with Glaucoma.

Journal Article Ophthalmol Glaucoma · 2021 PURPOSE: To investigate the association between levels of diabetes mellitus (DM) control and rates of visual field and retinal nerve fiber layer (RNFL) loss over time in glaucoma. DESIGN: Retrospective cohort study. PARTICIPANTS: A total of 351 eyes of 222 ... Full text Link to item Cite

SpanPredict: Extraction of Predictive Document Spans with Neural Attention

Conference NAACL-HLT 2021 - 2021 Conference of the North American Chapter of the Association for Computational Linguistics: Human Language Technologies, Proceedings of the Conference · January 1, 2021 In many natural language processing applications, identifying predictive text can be as important as the predictions themselves. When predicting medical diagnoses, for example, identifying predictive content in clinical notes not only enhances interpretabi ... Cite

Discriminating between healthy and glaucomatous eyes using a Bayesian macular deviation map

Conference INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE · 2021 Cite

Intraocular Pressure and Rates of Macular Thickness Thinning in Subjects with Glaucoma

Conference INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE · 2021 Cite

The Effect of Age on Increasing Susceptibility to Retinal Nerve Fiber Layer Loss in Glaucoma.

Journal Article Invest Ophthalmol Vis Sci · November 2, 2020 PURPOSE: To determine whether aging modifies the effect of intraocular pressure (IOP) on progressive glaucomatous retinal nerve fiber layer (RNFL) thinning over time. METHODS: This was a retrospective cohort study involving patients with glaucoma or suspec ... Full text Open Access Link to item Cite

Health system utilization before age 1 among children later diagnosed with autism or ADHD.

Journal Article Scientific reports · October 2020 Children with autism spectrum disorder (ASD) or attention deficit hyperactivity disorder (ADHD) have 2-3 times increased healthcare utilization and annual costs once diagnosed, but little is known about their utilization patterns early in life. Quantifying ... Full text Cite

The Relationship Between Asymmetries of Corneal Properties and Rates of Visual Field Progression in Glaucoma Patients.

Journal Article J Glaucoma · October 2020 UNLABELLED: PRéCIS:: In this study, asymmetries in corneal hysteresis (CH) between eyes of glaucoma patients were significantly associated with asymmetries in rates of visual field loss, suggesting a role of hysteresis as a risk factor for disease progress ... Full text Link to item Cite

Rationale and design of "Hearts & Parks": study protocol for a pragmatic randomized clinical trial of an integrated clinic-community intervention to treat pediatric obesity.

Journal Article BMC Pediatr · June 26, 2020 BACKGROUND: The prevalence of child and adolescent obesity and severe obesity continues to increase despite decades of policy and research aimed at prevention. Obesity strongly predicts cardiovascular and metabolic disease risk; both begin in childhood. Ch ... Full text Link to item Cite

Neural Conditional Event Time Models

Journal Article · April 3, 2020 Event time models predict occurrence times of an event of interest based on known features. Recent work has demonstrated that neural networks achieve state-of-the-art event time predictions in a variety of settings. However, standard event time models supp ... Link to item Cite

Assessment of a Segmentation-Free Deep Learning Algorithm for Diagnosing Glaucoma From Optical Coherence Tomography Scans.

Journal Article JAMA Ophthalmol · April 1, 2020 IMPORTANCE: Conventional segmentation of the retinal nerve fiber layer (RNFL) is prone to errors that may affect the accuracy of spectral-domain optical coherence tomography (SD-OCT) scans in detecting glaucomatous damage. OBJECTIVE: To develop a segmentat ... Full text Link to item Cite

Human Versus Machine: Comparing a Deep Learning Algorithm to Human Gradings for Detecting Glaucoma on Fundus Photographs.

Journal Article Am J Ophthalmol · March 2020 PURPOSE: To compare the diagnostic performance of human gradings vs predictions provided by a machine-to-machine (M2M) deep learning (DL) algorithm trained to quantify retinal nerve fiber layer (RNFL) damage on fundus photographs. DESIGN: Evaluation of a m ... Full text Link to item Cite

Artificial Intelligence Mapping of Structure to Function in Glaucoma.

Journal Article Transl Vis Sci Technol · March 2020 PURPOSE: To develop an artificial intelligence (AI)-based structure-function (SF) map relating retinal nerve fiber layer (RNFL) damage on spectral domain optical coherence tomography (SDOCT) to functional loss on standard automated perimetry (SAP). METHODS ... Full text Link to item Cite

Comparison of Short- And Long-Term Variability in Standard Perimetry and Spectral Domain Optical Coherence Tomography in Glaucoma.

Journal Article Am J Ophthalmol · February 2020 PURPOSE: To assess short- and long-term variability on standard automated perimetry (SAP) and spectral domain optical coherence tomography (SD-OCT) in glaucoma. DESIGN: Prospective cohort. METHODS: Ordinary least squares linear regression of SAP mean devia ... Full text Link to item Cite

Quantification of Retinal Nerve Fibre Layer Thickness on Optical Coherence Tomography with a Deep Learning Segmentation-Free Approach.

Journal Article Sci Rep · January 15, 2020 This study describes a segmentation-free deep learning (DL) algorithm for measuring retinal nerve fibre layer (RNFL) thickness on spectral-domain optical coherence tomography (SDOCT). The study included 25,285 B-scans from 1,338 eyes of 706 subjects. Train ... Full text Link to item Cite

Comparing the Rule of 5 to Trend-based Analysis for Detecting Glaucoma Progression on OCT.

Journal Article Ophthalmol Glaucoma · 2020 PURPOSE: The rule of 5 is a simple rule for detecting retinal nerve fiber layer (RNFL) change on spectral-domain OCT (SD-OCT), in which a loss of 5 μm of global RNFL on a follow-up test is considered evidence of significant change when compared with the ba ... Full text Link to item Cite

The association between race and longitudinal visual field variability

Conference INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE · 2020 Cite

A Deep Learning-Based Mapping of Structure to Function in Glaucoma

Conference INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE · 2020 Cite

Estimating Rates of Progression and Predicting Future Visual Fields in Glaucoma Using a Deep Variational Autoencoder.

Journal Article Sci Rep · December 2, 2019 In this manuscript we develop a deep learning algorithm to improve estimation of rates of progression and prediction of future patterns of visual field loss in glaucoma. A generalized variational auto-encoder (VAE) was trained to learn a low-dimensional re ... Full text Link to item Cite

Corneal Biomechanics and Visual Field Progression in Eyes with Seemingly Well-Controlled Intraocular Pressure.

Journal Article Ophthalmology · December 2019 PURPOSE: To investigate the incidence and risk factors for glaucomatous visual field progression in eyes with well-controlled intraocular pressure (IOP). DESIGN: Prospective cohort. PARTICIPANTS: A total of 460 eyes of 334 patients with glaucoma under trea ... Full text Link to item Cite

Diagnosing Glaucoma Progression With Visual Field Data Using a Spatiotemporal Boundary Detection Method

Journal Article Journal of the American Statistical Association · July 3, 2019 Diagnosing glaucoma progression is critical for limiting irreversible vision loss. A common method for assessing glaucoma progression uses a longitudinal series of visual fields (VFs) acquired at regular intervals. VF data are characterized by a complex sp ... Full text Cite

A spatially varying change points model for monitoring glaucoma progression using visual field data

Journal Article Spatial Statistics · April 1, 2019 Glaucoma disease progression, as measured by visual field (VF) data, is often defined by periods of relative stability followed by an abrupt decrease in visual ability at some point in time. Determining the transition point of the disease trajectory to a m ... Full text Cite

Improved Detection of Visual Field Progression Using a Spatiotemporal Boundary Detection Method.

Journal Article Sci Rep · March 15, 2019 Glaucoma is the leading cause of irreversible blindness worldwide and requires regular monitoring upon diagnosis to ascertain whether the disease is stable or progressing. However, making this determination remains a difficult clinical task. Recently, a no ... Full text Link to item Cite

ATRIAL ISCHEMIA AS A MECHANISM OF ATRIAL FIBRILLATION

Conference Journal of the American College of Cardiology · March 2018 Full text Cite

spCP: Spatially Varying Change Points With Spatiotemporal Slopes and Intersects

Software · 2018 Implements a spatially varying change point model with unique intercepts, slopes, variance intercepts and slopes, and change points at each location. Inference is within the Bayesian setting using Markov chain Monte Carlo (MCMC). The response variable can ... Link to item Cite

womblR: Spatiotemporal Boundary Detection Model for Areal Unit Data

Software · 2017 Implements a spatiotemporal boundary detection model with a dissimilarity metric for areal data with inference in a Bayesian setting using Markov chain Monte Carlo (MCMC). The response variable can be modeled as Gaussian (no nugget), probit or Tobit link a ... Link to item Cite

Predicting neonatal respiratory morbidity by lamellar body count and gestational age.

Journal Article J Perinat Med · August 1, 2016 AIMS: To develop a predictive model for assessing the risk of developing neonatal respiratory morbidity using lamellar body counts (LBCs) and gestational age (GA) to provide a more patient-specific assessment. METHODS: Retrospective cohort study of patient ... Full text Link to item Cite

Spatially Modelling the Association Between Access to Recreational Facilities and Exercise: The 'Multi-Ethnic Study of Atherosclerosis'.

Journal Article J R Stat Soc Ser A Stat Soc · January 2016 Numerous studies have investigated the relationship between the built environment and physical activity. However these studies assume that these relationships are invariant over space. In this study, we introduce a novel method to analyze the association b ... Full text Link to item Cite

132: Predicting neonatal respiratory morbidity using lamellar body counts and gestational age

Conference American Journal of Obstetrics and Gynecology · January 2014 Full text Cite