Scholars@Duke
Jessica Dale Tenenbaum

Jessica Dale Tenenbaum

Associate Professor of Biostatistics & Bioinformatics
Biostatistics & Bioinformatics, Division of Translational Biomedical
jessie.tenenbaum@duke.edu
Duke Box 2721, Durham, NC 27710
2424 Erwin Road Ste 902, 9024 Hock Plaza, Durham, NC 27705

Selected Publications

Accelerating a learning public health system: Opportunities, obstacles, and a call to action.

Journal Article Learn Health Syst · October 2024 INTRODUCTION: Public health systems worldwide face increasing challenges in addressing complex health issues and improving population health outcomes. This experience report introduces the concept of a Learning Public Health System (LPHS) as a potential so ... Full text Link to item Cite

Health Care Cost Reductions with Machine Learning-Directed Evaluations during Radiation Therapy - An Economic Analysis of a Randomized Controlled Study.

Journal Article NEJM AI · April 2024 BACKGROUND: Machine learning (ML) may cost-effectively direct health care by identifying patients most likely to benefit from preventative interventions to avoid negative and expensive outcomes. System for High-Intensity Evaluation During Radiation Therapy ... Full text Link to item Cite

Healthcare provider evaluation of machine learning-directed care: reactions to deployment on a randomised controlled study.

Journal Article BMJ Health Care Inform · February 2023 OBJECTIVES: Clinical artificial intelligence and machine learning (ML) face barriers related to implementation and trust. There have been few prospective opportunities to evaluate these concerns. System for High Intensity EvaLuation During Radiotherapy (NC ... Full text Link to item Cite

U.S. Adult Perspectives on Facial Images, DNA, and Other Biometrics.

Journal Article IEEE Trans Technol Soc · March 2022 Applications of biometrics in various societal contexts have been increasing in the United States, and policy debates about potential restrictions and expansions for specific biometrics (such as facial recognition and DNA identification) have been intensif ... Full text Link to item Cite

Association of mental health diagnosis with race and all-cause mortality after a cancer diagnosis: Large-scale analysis of electronic health record data.

Journal Article Cancer · January 15, 2022 BACKGROUND: Disparity in mental health care among cancer patients remains understudied. METHODS: A large, retrospective, single tertiary-care institution cohort study was conducted based on deidentified electronic health record data of 54,852 adult cancer ... Full text Link to item Cite

Machine Learning Algorithm Prospectively Predicts Survival for High-Risk Patients Undergoing Radiotherapy: A Survival Analysis of SHIELD-RT.

Conference International journal of radiation oncology, biology, physics · November 2021 Purpose/objective(s)Mortality prediction is critical to appropriate cancer care planning. This has become a topic of interest, with machine learning (ML) tools demonstrating accurate binary predictions for mortality at specific time points. There ... Full text Cite

COVID-19 Vaccine Administration, by Race and Ethnicity - North Carolina, December 14, 2020-April 6, 2021.

Journal Article MMWR Morb Mortal Wkly Rep · July 16, 2021 COVID-19 has disproportionately affected non-Hispanic Black or African American (Black) and Hispanic persons in the United States (1,2). In North Carolina during January-September 2020, deaths from COVID-19 were 1.6 times higher among Black persons than am ... Full text Link to item Cite

Precision medicine and informatics

Chapter · July 2, 2021 In this chapter, we will focus on the informatics resources for and implications of precision medicine. We will also provide a basic overview of precision medicine. Informatics is needed for the capture of data, transformation of data into information and ... Full text Cite

Bioinformatics

Chapter · July 2, 2021 This chapter introduces bioinformatics and the impacts of data generated by advanced biotechnology applications. A brief introduction regarding the underlying biology of these technologies is described. The types of data being generated and how they are im ... Full text Cite

Translational bioinformatics

Chapter · July 2, 2021 Translational bioinformatics refers to the subfield of informatics that extracts new knowledge from voluminous amounts of biological data, particularly molecular data, to enable precision medicine. Though which types of molecular data spans a broad spectru ... Full text Cite

Gender representation in U.S. biomedical informatics leadership and recognition.

Journal Article J Am Med Inform Assoc · June 12, 2021 OBJECTIVE: This study sought to describe gender representation in leadership and recognition within the U.S. biomedical informatics community. MATERIALS AND METHODS: Data were collected from public websites or provided by American Medical Informatics Assoc ... Full text Link to item Cite

Impact of machine learning-directed on-treatment evaluations on cost of acute care visits: Economic analysis of SHIELD-RT.

Conference Journal of Clinical Oncology · May 20, 2021 1509 Background: SHIELD-RT was a randomized controlled quality improvement study (NCT03775265) that implemented electronic health record-based machine learning (ML) to direct supplemental visits for high risk (HR) patients underg ... Full text Cite

Use of electronic health records to support a public health response to the COVID-19 pandemic in the United States: a perspective from 15 academic medical centers.

Journal Article J Am Med Inform Assoc · February 15, 2021 Our goal is to summarize the collective experience of 15 organizations in dealing with uncoordinated efforts that result in unnecessary delays in understanding, predicting, preparing for, containing, and mitigating the COVID-19 pandemic in the US. Response ... Full text Link to item Cite

A survey of U.S. public perspectives on facial recognition technology and facial imaging data practices in health and research contexts.

Journal Article PLoS One · 2021 Facial imaging and facial recognition technologies, now common in our daily lives, also are increasingly incorporated into health care processes, enabling touch-free appointment check-in, matching patients accurately, and assisting with the diagnosis of ce ... Full text Link to item Cite

Natural language processing for abstraction of cancer treatment toxicities: accuracy versus human experts.

Journal Article JAMIA Open · December 2020 OBJECTIVES: Expert abstraction of acute toxicities is critical in oncology research but is labor-intensive and variable. We assessed the accuracy of a natural language processing (NLP) pipeline to extract symptoms from clinical notes compared to physicians ... Full text Link to item Cite

Circulating ethanolamine plasmalogen indices in Alzheimer's disease: Relation to diagnosis, cognition, and CSF tau.

Journal Article Alzheimers Dement · September 2020 INTRODUCTION: Altered lipid metabolism is implicated in Alzheimer's disease (AD), but the mechanisms remain obscure. Aging-related declines in circulating plasmalogens containing omega-3 fatty acids may increase AD risk by reducing plasmalogen availability ... Full text Link to item Cite

Interrater Reliability in Toxicity Identification: Limitations of Current Standards.

Journal Article International journal of radiation oncology, biology, physics · August 2020 PurposeThe National Cancer Institute Common Terminology Criteria for Adverse Events (CTCAE) v5.0 is the standard for oncology toxicity encoding and grading, despite limited validation. We assessed interrater reliability (IRR) in multireviewer toxi ... Full text Cite

Design and analytic considerations for using patient-reported health data in pragmatic clinical trials: report from an NIH Collaboratory roundtable.

Journal Article J Am Med Inform Assoc · April 1, 2020 Pragmatic clinical trials often entail the use of electronic health record (EHR) and claims data, but bias and quality issues associated with these data can limit their fitness for research purposes particularly for study end points. Patient-reported healt ... Full text Open Access Link to item Cite

Sex and APOE ε4 genotype modify the Alzheimer's disease serum metabolome.

Journal Article Nat Commun · March 2, 2020 Late-onset Alzheimer's disease (AD) can, in part, be considered a metabolic disease. Besides age, female sex and APOE ε4 genotype represent strong risk factors for AD that also give rise to large metabolic differences. We systematically investigated group- ... Full text Link to item Cite

Bile acids targeted metabolomics and medication classification data in the ADNI1 and ADNIGO/2 cohorts.

Journal Article Sci Data · October 17, 2019 Alzheimer's disease (AD) is the most common cause of dementia. The mechanism of disease development and progression is not well understood, but increasing evidence suggests multifactorial etiology, with a number of genetic, environmental, and aging-related ... Full text Link to item Cite

Symptom-based patient stratification in mental illness using clinical notes.

Journal Article J Biomed Inform · October 2019 Mental illnesses are highly heterogeneous with diagnoses based on symptoms that are generally qualitative, subjective, and documented in free text clinical notes rather than as structured data. Moreover, there exists significant variation in symptoms withi ... Full text Link to item Cite

Accuracy of a Natural Language Processing Pipeline to Identify Patient Symptoms during Radiation Therapy

Conference International Journal of Radiation Oncology*Biology*Physics · September 2019 Full text Cite

Translational bioinformatics in mental health: open access data sources and computational biomarker discovery.

Journal Article Brief Bioinform · May 21, 2019 Mental illness is increasingly recognized as both a significant cost to society and a significant area of opportunity for biological breakthrough. As -omics and imaging technologies enable researchers to probe molecular and physiological underpinnings of m ... Full text Link to item Cite

Reimagining the research-practice relationship: policy recommendations for informatics-enabled evidence-generation across the US health system.

Journal Article JAMIA Open · April 2019 The widespread adoption and use of electronic health records and their use to enable learning health systems (LHS) holds great promise to accelerate both evidence-generating medicine (EGM) and evidence-based medicine (EBM), thereby enabling a LHS. In 2016, ... Full text Link to item Cite

Altered bile acid profile associates with cognitive impairment in Alzheimer's disease-An emerging role for gut microbiome.

Journal Article Alzheimers Dement · January 2019 INTRODUCTION: Increasing evidence suggests a role for the gut microbiome in central nervous system disorders and a specific role for the gut-brain axis in neurodegeneration. Bile acids (BAs), products of cholesterol metabolism and clearance, are produced i ... Full text Open Access Link to item Cite

Predicting Emergency Visits and Hospital Admissions During Radiation and Chemoradiation: An Internally Validated Pretreatment Machine Learning Algorithm.

Journal Article JCO Clin Cancer Inform · December 2018 PURPOSE: Patients undergoing radiotherapy (RT) or chemoradiotherapy (CRT) may require emergency department evaluation or hospitalization. Early identification may direct preventative supportive care, improving outcomes and reducing health care costs. We de ... Full text Link to item Cite

Generation and quality control of lipidomics data for the alzheimer's disease neuroimaging initiative cohort.

Journal Article Sci Data · November 20, 2018 Alzheimer's disease (AD) is a major public health priority with a large socioeconomic burden and complex etiology. The Alzheimer Disease Metabolomics Consortium (ADMC) and the Alzheimer Disease Neuroimaging Initiative (ADNI) aim to gain new biological insi ... Full text Link to item Cite

Democratizing Health Data for Translational Research.

Conference Pac Symp Biocomput · 2018 There is an expanding and intensive focus on the accessibility, reproducibility, and rigor of basic, clinical, and translational research. This focus complements the need to identify sustainable ways to generate actionable research results that improve hum ... Link to item Cite

Best practices and lessons learned from reuse of 4 patient-derived metabolomics datasets in Alzheimer's disease.

Conference Pac Symp Biocomput · 2018 The importance of open data has been increasingly recognized in recent years. Although the sharing and reuse of clinical data for translational research lags behind best practices in biological science, a number of patient-derived datasets exist and have b ... Link to item Cite

Targeted metabolomics and medication classification data from participants in the ADNI1 cohort.

Journal Article Scientific data · October 2017 Alzheimer's disease (AD) is the most common neurodegenerative disease presenting major health and economic challenges that continue to grow. Mechanisms of disease are poorly understood but significant data point to metabolic defects that might contribute t ... Full text Cite

Metabolic network failures in Alzheimer's disease: A biochemical road map.

Journal Article Alzheimers Dement · September 2017 INTRODUCTION: The Alzheimer's Disease Research Summits of 2012 and 2015 incorporated experts from academia, industry, and nonprofit organizations to develop new research directions to transform our understanding of Alzheimer's disease (AD) and propel the d ... Full text Link to item Cite

Beyond the Genetic Information Nondiscrimination Act: ethical and economic implications of the exclusion of disability, long-term care and life insurance.

Journal Article Per Med · March 2017 The Genetic Information Nondiscrimination Act (GINA) was intended to protect individuals in the USA from discrimination based on their genetic data, but does not apply to life, long-term care or disability insurance. Patient advocates and ethicists have ar ... Full text Link to item Cite

OPEN DATA FOR DISCOVERY SCIENCE.

Conference Pac Symp Biocomput · 2017 The modern healthcare and life sciences ecosystem is moving towards an increasingly open and data-centric approach to discovery science. This evolving paradigm is predicated on a complex set of information needs related to our collective ability to share, ... Full text Link to item Cite

Assessing the quality of electronic health record data and patient self-report data

Conference Proceedings of the 22nd MIT International Conference on Information Quality, ICIQ 2017 · January 1, 2017 © 2017 MIT Information Quality Program. All rights reserved. Knowing the accuracy of self-reported medical data is critical to using the data in clinical decision-making and research. The same is true for data in Electronic Health Records (EHRs). For these ... Cite

Assessing the quality of electronic health record data and patient self-report data

Conference Proceedings of the 22nd MIT International Conference on Information Quality, ICIQ 2017 · January 1, 2017 © 2017 MIT Information Quality Program. All rights reserved. Knowing the accuracy of self-reported medical data is critical to using the data in clinical decision-making and research. The same is true for data in Electronic Health Records (EHRs). For these ... Cite

Assessing the quality of electronic health record data and patient self-report data

Conference Proceedings of the 22nd MIT International Conference on Information Quality, ICIQ 2017 · January 1, 2017 Knowing the accuracy of self-reported medical data is critical to using the data in clinical decision-making and research. The same is true for data in Electronic Health Records (EHRs). For these data, accuracy reported in the literature varies widely leav ... Cite

Evaluating common data models for use with a longitudinal community registry.

Journal Article J Biomed Inform · December 2016 OBJECTIVE: To evaluate common data models (CDMs) to determine which is best suited for sharing data from a large, longitudinal, electronic health record (EHR)-based community registry. MATERIALS AND METHODS: Four CDMs were chosen from models in use for cli ... Full text Link to item Cite

An informatics research agenda to support precision medicine: seven key areas.

Journal Article J Am Med Inform Assoc · July 2016 The recent announcement of the Precision Medicine Initiative by President Obama has brought precision medicine (PM) to the forefront for healthcare providers, researchers, regulators, innovators, and funders alike. As technologies continue to evolve and da ... Full text Link to item Cite

More on Data Sharing.

Journal Article N Engl J Med · May 12, 2016 Full text Link to item Cite

Merging Electronic Health Record Data and Genomics for Cardiovascular Research: A Science Advisory From the American Heart Association.

Journal Article Circ Cardiovasc Genet · April 2016 The process of scientific discovery is rapidly evolving. The funding climate has influenced a favorable shift in scientific discovery toward the use of existing resources such as the electronic health record. The electronic health record enables long-term ... Full text Link to item Cite

Translational Bioinformatics: Past, Present, and Future.

Journal Article Genomics Proteomics Bioinformatics · February 2016 Though a relatively young discipline, translational bioinformatics (TBI) has become a key component of biomedical research in the era of precision medicine. Development of high-throughput technologies and electronic health records has caused a paradigm shi ... Full text Link to item Cite

Research Reproducibility in Longitudinal Multi-Center Studies Using Data from Electronic Health Records.

Journal Article AMIA Jt Summits Transl Sci Proc · 2016 A fundamental premise of scientific research is that it should be reproducible. However, the specific requirements for reproducibility of research using electronic health record (EHR) data have not been sufficiently articulated. There is no guidance for re ... Link to item Cite

Translational bioinformatics 101

Conference Pacific Symposium on Biocomputing · January 1, 2016 Full text Cite

Personalized medicine

Chapter · January 1, 2015 Personalized medicine is fundamentally about targeting the right treatment for the right patient at the right time. As increasing amounts of information about a patient may be efficiently collected, analyzed, and retrieved, it is increasingly possible to t ... Full text Cite

Preserving an integrated view of informatics.

Journal Article J Am Med Inform Assoc · February 2014 Full text Link to item Cite

Use of RxNorm and NDF-RT to normalize and characterize participant-reported medications in an i2b2-based research repository.

Journal Article AMIA Jt Summits Transl Sci Proc · 2014 The MURDOCK Study is longitudinal, large-scale epidemiological study for which participants' medication use is collected as free text. In order to maximize utility of drug data, while minimizing cost due to manual expert intervention, we have developed a g ... Link to item Cite

A sea of standards for omics data: sink or swim?

Journal Article J Am Med Inform Assoc · 2014 In the era of Big Data, omic-scale technologies, and increasing calls for data sharing, it is generally agreed that the use of community-developed, open data standards is critical. Far less agreed upon is exactly which data standards should be used, the cr ... Full text Link to item Cite

Bioinformatics

Chapter · January 1, 2014 Full text Cite

Translational bioinformatics

Chapter · January 1, 2014 Full text Cite

An Altered Treatment Plan Based on Direct to Consumer (DTC) Genetic Testing: Personalized Medicine from the Patient/Pin-cushion Perspective.

Journal Article J Pers Med · October 30, 2012 Direct to consumer (DTC) genomic services facilitate the personalized and participatory aspects of "P4" medicine, but raise questions regarding use of genomic data in providing predictive and preventive healthcare. We illustrate the issues involved by desc ... Full text Link to item Cite

Practices and perspectives on building integrated data repositories: results from a 2010 CTSA survey.

Journal Article J Am Med Inform Assoc · June 2012 Clinical integrated data repositories (IDRs) are poised to become a foundational element of biomedical and translational research by providing the coordinated data sources necessary to conduct retrospective analytic research and to identify and recruit pro ... Full text Link to item Cite

The MURDOCK Study: a long-term initiative for disease reclassification through advanced biomarker discovery and integration with electronic health records.

Journal Article Am J Transl Res · 2012 BACKGROUND: Facing critically low return per dollar invested on clinical research and clinical care, the American biomedical enterprise is in need of a significant transformation. A confluence of high-throughput "omic" technologies and increasing adoption ... Link to item Cite

The Measurement to Understand Reclassification of Disease of Cabarrus/Kannapolis (MURDOCK) Study Community Registry and Biorepository.

Journal Article Am J Transl Res · 2012 Current understanding of chronic diseases is based on crude clinical characterization, imaging studies, and laboratory testing that has evolved over decades. The Measurement to Understand Reclassification of Disease of Cabarrus/Kannapolis (MURDOCK) Study i ... Link to item Cite

The Biomedical Resource Ontology (BRO) to enable resource discovery in clinical and translational research.

Journal Article J Biomed Inform · February 2011 The biomedical research community relies on a diverse set of resources, both within their own institutions and at other research centers. In addition, an increasing number of shared electronic resources have been developed. Without effective means to locat ... Full text Link to item Cite

Expression-based Pathway Signature Analysis (EPSA): mining publicly available microarray data for insight into human disease.

Journal Article BMC Med Genomics · October 20, 2008 BACKGROUND: Publicly available data repositories facilitate the sharing of an ever-increasing amount of microarray data. However, these datasets remain highly underutilized. Reutilizing the data could offer insights into questions and diseases entirely dis ... Full text Link to item Cite

Evaluation of microarray surfaces and arraying parameters for autoantibody profiling.

Journal Article Proteomics · September 2008 Autoantigen microarrays are being used increasingly to study autoimmunity. Significant variation has been observed when comparing microarray surfaces, printing methods, and probing conditions. In the present study, 24 surfaces and several arraying paramete ... Full text Link to item Cite

BioWarehouse: a bioinformatics database warehouse toolkit.

Journal Article BMC Bioinformatics · March 23, 2006 BACKGROUND: This article addresses the problem of interoperation of heterogeneous bioinformatics databases. RESULTS: We introduce BioWarehouse, an open source toolkit for constructing bioinformatics database warehouses using the MySQL and Oracle relational ... Full text Link to item Cite

Multiplexed protein array platforms for analysis of autoimmune diseases.

Journal Article Annu Rev Immunol · 2006 Several proteomics platforms have emerged in the past decade that show great promise for filling in the many gaps that remain from earlier studies of the genome and from the sequencing of the human genome itself. This review describes applications of prote ... Full text Link to item Cite