Temporal Events Detector for Pregnancy Care (TED-PC): A rule-based algorithm to infer gestational age and delivery date from electronic health records of pregnant women with and without COVID-19
Year: 2022
Type: article
Abstract: OBJECTIVE: Identifying the time of SARS-CoV-2 viral infection relative to specific gestational weeks is critical for delineating the role of viral infection timing in adverse pregnancy outcomes. However, this task is difficult when it comes to Electronic Health Records (EHR). In combating the COVID-19 pandemic for maternal health, we sought to develop and validate a clinical information extraction algorithm to detect the time of clinical events relative to gestational weeks. MATERIALS AND METHODS: We used EHR from the National COVID Cohort Collaborative (N3C), in which the EHR are normalized by the Observational Medical Outcomes Partnership (OMOP) Common Data Model (CDM). We performed EHR phenotyping, resulting in 270,897 pregnant women (June 1st, 2018 to May 31st, 2021). We developed a rule-based algorithm and performed a multi-level evaluation to test content validity and clinical validity, and extreme length of gestation (<150 or >300). RESULTS: The algorithm identified 296,194 pregnancies (16,659 COVID-19, 174,744 without COVID-19) in 270,897 pregnant women. For inferring gestational age, 95% cases (n = 40) have moderate-high accuracy (Cohen's Kappa = 0.62); 100% cases (n = 40) have moderate-high granularity of temporal information (Cohen's Kappa = 1). For inferring delivery dates, the accuracy is 100% (Cohen's Kappa = 1). The accuracy of gestational age detection for the extreme length of gestation is 93.3% (Cohen's Kappa = 1). Mothers with COVID-19 showed higher prevalence in obesity or overweight (35.1% vs. 29.5%), diabetes (17.8% vs. 17.0%), chronic obstructive pulmonary disease (0.2% vs. 0.1%), respiratory distress syndrome or acute respiratory failure (1.8% vs. 0.2%). DISCUSSION: We explored the characteristics of pregnant women by different gestational weeks of SARS-CoV-2 infection with our algorithm. TED-PC is the first to infer the exact gestational week linked with every clinical event from EHR and detect the timing of SARS-CoV-2 infection in pregnant women. CONCLUSION: The algorithm shows excellent clinical validity in inferring gestational age and delivery dates, which supports multiple EHR cohorts on N3C studying the impact of COVID-19 on pregnancy.
Source: PLoS ONE
Institution: University of South Carolina
Language: English
Subfield: Artificial Intelligence
Field: Computer Science
Domain: Physical Sciences
Open Access status: gold
Estimated APC paid: $1,805
Funders: Bill and Melinda Gates Foundation, Yale University, University of Southern California, Children's Hospital of Philadelphia, University of Nebraska Medical Center, Vanderbilt University, University of Miami, University of Pennsylvania, Emory University, Tufts Medical Center, NYU Langone Medical Center, University of Wisconsin-Madison, Northwestern University, George Washington University, Wake Forest University, Cincinnati Children's Hospital Medical Center, Vanderbilt Institute for Clinical and Translational Research, University of Chicago, University of Minnesota, Washington University in St. Louis, University of Michigan, Loyola University Chicago, University of Utah, University of Washington, University of Texas Medical Branch, Tulane University, Johns Hopkins University, University of Oklahoma, Institute for Translational Medicine and Therapeutics, Institute of Clinical and Translational Sciences, University of Rochester, University of Cincinnati, Pennsylvania State University, University of Arkansas for Medical Sciences, Rush University, Virginia Commonwealth University, Southern California Clinical and Translational Science Institute, West Virginia University, Montana State University, MedStar Health Research Institute, Georgetown-Howard Universities Center for Clinical and Translational Science, University of Texas Health Science Center at Houston, NorthShore University HealthSystem, Vanderbilt University Medical Center, Institute of Translational Health Sciences, Penn State Clinical and Translational Science Institute, Louisiana Clinical and Translational Science Center, Ochsner Health, West Virginia Clinical and Translational Science Institute, National Institutes of Health, University of Illinois at Urbana-Champaign, Institute for Clinical and Translational Research, University of Wisconsin, Madison, University of California, Los Angeles, Weill Cornell Medical College, University of California, Davis, Oregon Clinical and Translational Research Institute, University of North Carolina at Chapel Hill, University of California, San Diego, University of Oklahoma Health Sciences Center, University of California, San Francisco, Michigan Institute for Clinical and Health Research, University of Texas Health Science Center at San Antonio, University of California, Irvine, Leonard M. Miller School of Medicine, Center for Clinical and Translational Research, University of Colorado Denver, Center for Clinical and Translational Science, University of Massachusetts, Center for Clinical and Translational Science, Mayo Clinic, Center for Clinical and Translational Sciences, University of Texas Health Science Center at Houston, Irving Medical Center, Columbia University, Translational Research Institute, University of Arkansas for Medical Sciences, South Carolina Clinical and Translational Research Institute, Medical University of South Carolina, Clinical and Translational Science Institute, University of Florida, Frontiers Clinical and Translational Science Institute, University of Kansas, Clinical and Translational Science Center, University of New Mexico, National Institute of General Medical Sciences, National Institute of Allergy and Infectious Diseases, National Center for Advancing Translational Sciences, Institute for Integration of Medicine and Science, Colorado Clinical and Translational Sciences Institute, Yale Center for Clinical Investigation, Yale School of Medicine, Institute for Clinical and Translational Science, University of California, Irvine, Wake Forest Clinical and Translational Science Institute, Wake Forest School of Medicine, Accelerated Innovation Research Initiative Turning Top Science and Ideas into High-Impact Values
Awards: G1003362385, Curating a Knowledge Base for Individuals with Coinfection of HIV and SARS-CoV-2: EHR-based Data Mining, G1074397124, G1110702752, G1133842343, G1172658771, Center for Clinical and Translational Sciences (CCTS), G1198907661, G1252910802, The OSU Center for Clinical and Translational Science: Advancing Today's Discoveries to Improve Health, G1426198371, G1513836106, University of Massachusetts Center for Clinical and Translational Science, G171052541, Wake Forest Clinical and Translational Science Award, G1862468807, G1897526822, Together: Transforming and Translating Discovery to Improve Health, Georgetown-Howard Universities Center for Clinical and Translational Science (GHUCCTS), Duke CTSA, G2049072053, G2101559773, G210617772, G2152875133, G2202983096, G2289923368, G237123860, G2507118478, G2508192175, G2592540264, G2635992203, G2714998049, G2724403125, G2740763107, G2761940466, Center for Clinical and Translational Science, G2927251591, The Harvard Clinical and Translational Science Center, Stanford Center for Clinical & Translational Education and Research (Spectrum), G3019850867, G3064378824, G3125251562, G3137464953, G3140511870, G3187757946, UNM HSC Clinical and Translational Science Center, University of Minnesota Clinical and TranslationalmScience Institute (UMN CTSI), G3455473179, G3534013791, G3552346897, G3573251375, G3667826151, G3695477739, Institute for Clinical and Translational Science, G3876554349, Tufts Clinical and Translational Science Institute, G4033363860, G4159580532, G4169670960, G4304223347, G432001851, G4410787187, G4688203610, G4689947851, The integrated Translational Health Research Institute of Virginia (iTHRIV): Using Data to Improve Health, MSHS Translational Science Hub, A National Center for Digital Health Informatics Innovation, G476308836, Northwestern University Clinical and Translational Science Institute (NUCATS), G4823677270, G4852991764, G4900725235, G4950870472, Center for Clinical and Translational Research, G5049613280, G5059334661, G5086723997, G5159529264, G5234653271, Center for Clinical and Translational Science and Training, G5286663980, G5317805653, G5352274017, G5409860367, G5430408733, G5555614831, G55941084, Miami Clinical and Translational Science Institute, G5644123735, G572024221, G584478153, G5849810213, Expanding Translational Research in Arkansas, Utah Center for Clinical and Translational Science, G6036981074, G6090519289, G6245908341, G625544220, G6292001676, G6370383993, American Indian - Alaska Native Clinical and Translational Research Center (AI-AN CTRC), G6551353892, G6576913434, Clinical and Translational Science Award, North Carolina Translational and Clinical Science Institute (NC TraCS), Michigan Institute for Clinical and Health Research (MICHR), Big Data analytics of HIV treatment gaps in South Carolina: Identification and prediction, G707880362, G7199445640, G7242922321, Scripps Translational Science Institute, New Jersey Alliance for Clinical Translational Science: NJ ACTS, G761346317, Clinical and Translational Science Institute at Childrens National, G7695494419, The University of Rochester Clinical and Translational Science Award Hub, Indiana Clinical and Translational Sciences Institute, G7768549844, G7793727360, G7818101325, Clinical and Translational Science Award, Clinical and Translational Science Award, Johns Hopkins Institute for Clinical and Translational Research, The University of Iowa Clinical and Translational Science Award, University of Buffalo Clinical and Translational Science Institute, Institute for Integration of Medicine & Science: A Partnership to Improve Health, G7985746753, G8021374757, Colorado Clinical and Transational Sciences Institute, G8241404708, South Carolina Clinical & Translational Research Institute (SCTR), Boston University Clinical and Translational Science Institute, G8387357155, G8599329124, G8659778970, G8681400831, G870076036, UC San Diego Clinical and Translational Research Institute, Frontiers Clinical and Translational Science Institute at the University of Kansas, Advance Clinical and Translational Research (Advance-CTR), Clinical and Translational Science Award, UC Davis Clinical and Translational Science Center, Northern New England Clinical and Translational Research Network, University of Wisconsin Institute for Clinical and Translational Research, Clinical and Translational Science Center, Mayo Clinic Center for Clinical and Translational Science (CCaTS), West Virginia Clinical and Translational Science Institute: A Statewide Organization Building Research Excellence and Engaging Communities to Improve Health, Vanderbilt Institute for Clinical and Translational Research (VICTR), Oregon Clinical and Translational Research Institute, Clinical and Translational Science Award, Oklahoma Shared Clinical and Translational Resources, Great Plains IDeA-CTR, Delaware Clinical and Translational Research ACCEL Program, Penn State Clinical and Translational Science Institute, Southern California Clinical and Translational Science Institute, Institutional Clinical and Translational Science Award, Washington University Institute of Clinical and Translational Sciences, Mississippi Center for Clinical and Translational Research, The Institute for Translational Medicine, Georgia Clinical & Translational Science Alliance (Georgia CTSA), Institute of Translational Health Sciences, Louisiana Clinical and Translational Science Center, Yale Clinical and Translational Science Award, Kentucky Center for Clinical and Translational Science, Developing, Demonstrating, and Disseminating Innovative Programs to Achieve Translational Success, UCLA Clinical and Translational Science Institute, Clinical and Translational Science Institute, UTMB Clinical and Translational Science Award
OpenAlex ID: W4307715196